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Pacific Ethanol, Inc.

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FY2011 Annual Report · Pacific Ethanol, Inc.
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UNITED STATES
SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549

FORM 10-K

(Mark One)
xx

ANNUAL REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the fiscal year ended December 31, 2011

OR

¨¨

TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the transition period from                  to               

Commission file number: 000-21467

PACIFIC ETHANOL, INC.
(Exact name of registrant as specified in its charter)

Delaware
(State or other jurisdiction of incorporation or organization)

41-2170618
(I.R.S. Employer Identification No.)

400 Capitol Mall, Suite 2060, Sacramento, California
(Address of principal executive offices)

95814
(Zip Code)

Registrant’s telephone number, including area code: (916) 403-2123

Securities registered pursuant to Section 12(b) of the Act:

Title of Class
Common Stock, $0.001 par value

Name of Exchange on Which Registered
The Nasdaq Stock Market LLC
(Nasdaq Capital Market)

Securities registered pursuant to Section 12(g) of the Act: None

Indicate by check mark if the registrant is a well-known seasoned issuer, as defined in Rule 405 of the Securities Act. Yes  ¨    No  x

Indicate by check mark if the registrant is not required to file reports pursuant to Section 13 or Section 15(d) of the Act. Yes  ¨    No  x

Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act
of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject
to such filing requirements for the past 90 days.  Yes  x    No  ¨

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate Website, if any, every Interactive Data File
required to be submitted and posted pursuant to Rule 405 of Regulation S-T during the preceding 12 months (or for such shorter period that the
registrant was required to submit and post such files.  Yes  x    No  ¨

Indicate  by  check  mark  if  disclosure  of  delinquent  filers  in  response  to  Item  405  of  Regulation  S-K  is  not  contained  herein,  and  will  not  be
contained, to the best of registrant’s knowledge, in definitive proxy or information statements incorporated by reference in Part III of this Form
10-K or any amendment to this Form 10-K. ¨

Indicate  by  check  mark  whether  the  registrant  is  a  large  accelerated  filer,  an  accelerated  filer,  or  a  non-accelerated  filer,  or  a  smaller  reporting
company. See the definitions of “large accelerated filer,” “accelerated filer” and “smaller reporting company” in Rule 12b-2 of the Exchange Act.
(Check one):

Large accelerated filer  ¨
Non-accelerated filer  ¨ (Do not check if a smaller reporting company)

Accelerated filer  ¨
Smaller reporting company  x

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Act). Yes  ¨    No  x

The aggregate market value of the voting common equity held by nonaffiliates of the registrant computed by reference to the closing sale price of
such stock, was approximately $20 million as of June 30, 2011, the last business day of the registrant’s most recently completed second fiscal
quarter. The registrant has no non-voting common equity.

The number of shares of the registrant’s common stock, $0.001 par value, outstanding as of March 7, 2012 was 86,803,933.

 
 
 
DOCUMENTS INCORPORATED BY REFERENCE:

Part III incorporates by reference certain information from the registrant’s definitive proxy statement (the “Proxy Statement”) for the 2012

Annual Meeting of Stockholders to be filed on or before April 30, 2012.

 
 
 
TABLE OF CONTENTS

Business.
Risk Factors.
Unresolved Staff Comments.
Properties.
Legal Proceedings.
Mine Safety Disclosures.

PART I

PART II

Market For Registrant’s Common Equity, Related Stockholder Matters and Issuer Purchases of Equity
Securities.
Selected Financial Data.
Management’s Discussion and Analysis of Financial Condition and Results of Operations.
Quantitative and Qualitative Disclosures About Market Risk.
Financial Statements and Supplementary Data.
Changes in and Disagreements With Accountants on Accounting and Financial Disclosure.
Controls and Procedures.
Other Information.

PART III

Directors, Executive Officers and Corporate Governance.
Executive Compensation.
Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters.
Certain Relationships and Related Transactions, and Director Independence.
Principal Accounting Fees and Services.

Item 1.
Item 1A.
Item 1B.
Item 2.
Item 3.
Item 4.

Item 5.

Item 6.
Item 7.
Item 7A.
Item 8.
Item 9.
Item 9A.
Item 9B.

Item 10.
Item 11.
Item 12.
Item 13.
Item 14.

Item 15.

Exhibits, Financial Statement Schedules.

PART IV

Index to Consolidated Financial Statements

Index to Exhibits

Signatures

Exhibits Filed with this Report

i

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12
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F-1

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
CAUTIONARY STATEMENT

All statements included or incorporated by reference in this Annual Report on Form 10-K, other than statements or characterizations
of historical fact, are forward-looking statements. Examples of forward-looking statements include, but are not limited to, statements concerning
projected net sales, costs and expenses and gross margins; our accounting estimates, assumptions and judgments; the demand for ethanol and
its  co-products;  the  competitive  nature  of  and  anticipated  growth  in  our  industry;  production  capacity  and  goals;  our  ability  to  consummate
acquisitions and integrate their operations successfully; and our prospective needs for additional capital. These forward-looking statements are
based  on  our  current  expectations,  estimates,  approximations  and  projections  about  our  industry  and  business,  management’s  beliefs,  and
certain  assumptions  made  by  us,  all  of  which  are  subject  to  change.  Forward-looking  statements  can  often  be  identified  by  words  such  as
“anticipates,”  “expects,”  “intends,”  “plans,”  “predicts,”  “believes,”  “seeks,”  “estimates,”  “may,”  “will,”  “should,”  “would,”  “could,”
“potential,” “continue,” “ongoing,” similar expressions and variations or negatives of these words. These statements are not guarantees of
future performance and are subject to risks, uncertainties and assumptions that are difficult to predict. Therefore, our actual results could differ
materially and adversely from those expressed in any forward-looking statements as a result of various factors, some of which are listed under
“Risk Factors” in Item 1A of this report. These forward-looking statements speak only as of the date of this report. We undertake no obligation
to revise or update publicly any forward-looking statement for any reason, except as otherwise required by law.

ii

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Item 1.

Business.

Business Overview

PART I

We are the leading marketer and producer of low-carbon renewable fuels in the Western United States.

We market all the ethanol produced by four ethanol production facilities located in California, Idaho and Oregon, or the Pacific Ethanol
Plants,  all  the  ethanol  produced  by  three  other  ethanol  producers  in  the  Western  United  States  and  ethanol  purchased  from  other  third-party
suppliers throughout the United States . We also market ethanol co-products, including wet distillers grains and syrup, or WDG, for the Pacific
Ethanol Plants.

We  have  extensive  customer  relationships  throughout  the  Western  United  States.  Our  ethanol  customers  are  integrated  oil  companies
and  gasoline  marketers  who  blend  ethanol  into  gasoline.  We  arrange  for  transportation,  storage  and  delivery  of  ethanol  purchased  by  our
customers  through  our  agreements  with  third-party  service  providers  in  the  Western  United  States,  primarily  in  California,  Arizona,  Nevada,
Utah, Oregon, Colorado, Idaho and Washington. Our WDG customers are dairies and feedlots located near the Pacific Ethanol Plants.

We  have  extensive  supplier  relationships  throughout  the  Western  and  Midwestern  United  States.  In  some  cases,  we  have  marketing

agreements with suppliers to market all of the output of their facilities.

We hold a 34% ownership interest in New PE Holdco LLC, or New PE Holdco, the owner of each of the plant holding companies, or
the Plant Owners, that collectively own the Pacific Ethanol Plants. We operate and maintain the Pacific Ethanol Plants under the terms of an asset
management  agreement  with  New  PE  Holdco  and  the  Plant  Owners,  including  supplying  all  goods  and  materials  necessary  to  operate  and
maintain each Pacific Ethanol Plant. In operating the Pacific Ethanol Plants, we direct the production process to obtain optimal production yields,
lower  costs  by  leveraging  our  infrastructure,  enter  into  risk  management  agreements  such  as  insurance  policies  and  manage  commodity  risk
practices.  We  are  also  in  complete  charge  of,  and  have  care  and  custody  over,  each  Pacific  Ethanol  Plant  that  is  not  operational,  and  provide
recommendations as to when a Pacific Ethanol Plant should become operational. We perform all activities necessary to support a cost effective
return  of  any  idled  Pacific  Ethanol  Plant  to  operational  status  once  New  PE  Holdco  approves  our  recommendation  to  re-start  an  idled  Pacific
Ethanol Plant.

We market ethanol and WDG produced by the Pacific Ethanol Plants under the terms of separate marketing agreements with the Plant
Owners  whose  facilities  are  operational.  The  marketing  agreements  provide  us  with  the  absolute  discretion  to  solicit,  negotiate,  administer
(including payment collection), enforce and execute ethanol and co-product sales agreements with any third party.

1

 
 
 
 
 
 
 
 
 
 
 
 
 
The Pacific Ethanol Plants are comprised of the four facilities described immediately below, three of which are currently operational.

When market conditions permit, and with approval of New PE Holdco, we intend to resume operations at the Madera, California facility.

Facility Name
Magic Valley
Columbia
Stockton
Madera

Facility Location
Burley, ID
Boardman, OR
Stockton, CA
Madera, CA

Estimated Annual
Capacity (gallons)
60,000,000
40,000,000
60,000,000
40,000,000

Current Operating Status
Operating
Operating
Operating
Idled

We also provide operations, maintenance and accounting services for a 250,000 gallon per year cellulosic integrated biorefinery owned

by ZeaChem Inc. in Boardman, Oregon, which is adjacent to the Pacific Ethanol Columbia plant.

Company History

We  are  a  Delaware  corporation  formed  in  February  2005.  Our  main  Internet  address  is http://www.pacificethanol.net.  Our  annual
reports  on  Form  10-K,  quarterly  reports  on  Form  10-Q,  current  reports  on  Form  8-K,  amendments  to  those  reports  and  other  Securities  and
Exchange  Commission  filings  are  available  free  of  charge  through  our  website  as  soon  as  reasonably  practicable  after  the  reports  are
electronically filed with, or furnished to, the Securities and Exchange Commission. Our common stock trades on The NASDAQ Capital Market
under the symbol “PEIX.” The inclusion of our Internet address in this report does not include or incorporate by reference into this report any
information contained on our website.

In 2006, we began constructing the first of the four Pacific Ethanol Plants and were continuously engaged in plant construction until the
fourth  facility  was  completed  in  2008.  In  late  2008  and  early  2009,  we  idled  production  at  three  of  the  Pacific  Ethanol  Plants  due  to  adverse
market conditions and lack of adequate working capital. On May 17, 2009, each of the Plant Owners filed voluntary petitions for relief under
chapter  11  of  Title  11  of  the  United  States  Bankruptcy  Code,  or  Bankruptcy  Code,  in  the  United  States  Bankruptcy  Court  for  the  District  of
Delaware,  or  Bankruptcy  Court,  in  an  effort  to  restructure  their  indebtedness.  On  April  16,  2010,  the  Plant  Owners  filed  a  joint  plan  of
reorganization, or Plan, with the Bankruptcy Court, which was structured in cooperation with a number of the Plant Owners’ secured lenders.
The Bankruptcy Court confirmed the Plan at a hearing on June 8, 2010. On June 29, 2010, or Effective Date, the Plant Owners emerged from
bankruptcy under the terms of the Plan. Under the Plan, on the Effective Date, all of the ownership interests in the Plant Owners were transferred
to New PE Holdco, which was wholly-owned as of that date by some of the prepetition lenders to the Plant Owners and new lenders to the Plant
Owners. As a result, the Pacific Ethanol Plants became wholly-owned by New PE Holdco as of the Effective Date.

Business Strategy

Our primary goal is to maintain and advance our position as the leading marketer and producer of low-carbon renewable fuels in the
Western  United  States.  We  view  the  key  elements  of  our  business  and  growth  strategy  to  achieve  this  objective  in  short-  and  long-term
perspectives, which include:

2

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Short-Term Strategy

·

·

·

Expand ethanol production  and  marketing revenues, ethanol markets and distribution  infrastructure.  We  plan  to  increase  our
ethanol  production  and  marketing  revenues  by  expanding  our  relationships  with  third-party  ethanol  producers  and  our  ethanol
customers to increase sales volumes of ethanol throughout the Western United States at profitable margins. In addition, we plan to
maintain and increase sales to animal feed customers in the local markets we serve for WDG. We also plan to expand the market
for ethanol by continuing to work with the federal government and state governments to encourage the adoption of policies and
standards  that  promote  ethanol  as  a  component  in  transportation  fuels.  In  addition,  we  plan  to  expand  our  distribution
infrastructure  by  increasing  our  ability  to  provide  transportation,  storage  and  related  logistical  services  to  our  customers
throughout the Western United States.

Operation of Pacific Ethanol Plants and Third-Party Plants. We operate the Pacific Ethanol Plants under an asset management
agreement  with  New  PE  Holdco  and  the  Plant  Owners.  If  the  Madera,  California  facility  becomes  operational,  we  intend  to
expand our business by providing management and operational services to that facility. We also intend to expand our business by
providing  management  services  to  other  third  party  facilities.  For  example,  in  October  2011,  we  entered  into  a  management
agreement  with  ZeaChem  Inc.  to  provide  operations,  maintenance  and  accounting  services  for  its  250,000  gallon  per  year
cellulosic integrated biorefinery in Boardman, Oregon.

Focus  on  cost  efficiencies.  We  operate  the  Pacific  Ethanol  Plants  in  markets  where  we  believe  local  characteristics  create  an
opportunity  to  capture  a  significant  production  and  shipping  cost  advantage  over  competing  ethanol  production  facilities.  We
believe a combination of factors will enable us to achieve this cost advantage, including:

o

o

o

Locations  near  fuel  blending  facilities  will  enable  lower  ethanol  transportation  costs  and  allow  timing  and  logistical
advantages over competing locations which require ethanol to be shipped over much longer distances.

Locations adjacent to major rail lines will enable the efficient delivery of corn in large unit trains from major corn-producing
regions.

Locations near large concentrations of dairy and/or beef cattle will enable delivery of WDG over short distances without the
need for costly drying processes.

In  addition  to  these  location-related  efficiencies,  we  believe  that  we  can  continue  to  increase  operating  efficiencies  by  incorporating

advanced design elements into the production facilities to take advantage of state-of-the-art technical and operational efficiencies.

Long-Term Strategy

·

·

·

Continue to increase our ownership interest in New PE Holdco. We intend to continue to increase our ownership interest in
New  PE  Holdco  as  opportunities  arise  to  purchase  additional  interests  from  other  members  and  as  financial  resources  and
business prospects make the acquisition of additional ownership interests in New PE Holdco advisable.

Explore new technologies and renewable fuels. We are evaluating a number of technologies that may increase the efficiency
of our ethanol production facilities and reduce our use of carbon-based fuels. For example, we have installed a reactor system
at  the  Columbia  facility  from  Pursuit  Dynamics  PLC  and  we  are  continuing  trials  for  the  purpose  of  verifying  the  stated
benefits. In addition, we are exploring the feasibility of using different and potentially abundant and cost-effective feedstocks,
including cellulosic feed stock, to supplement corn as the raw material used in the production of ethanol. As capital resources
become available, we intend to continue pursuing these opportunities.

Evaluate and pursue acquisition opportunities. We intend to evaluate and pursue opportunities to acquire additional ethanol
production, storage and distribution facilities and related infrastructure as financial resources and business prospects make the
acquisition of these facilities advisable. In addition, we may also seek to acquire facility sites under development.

3

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Competitive Strengths

We believe that our competitive strengths include the following:

·

·

·

·

·

Our  customer  and  supplier  relationships.  We  have  developed  extensive  business  relationships  with  our  customers  and
suppliers. In particular, we have developed extensive business relationships with major and independent un-branded gasoline
suppliers  who  collectively  control  the  majority  of  all  gasoline  sales  in  California  and  other  Western  states.  In  addition,  we
have  developed  extensive  business  relationships  with  ethanol  and  grain  suppliers  throughout  the  Western  and  Midwestern
United States.

Our ethanol distribution network. We believe that we have a competitive advantage due to our experience in marketing to the
segment of customers in major metropolitan and rural markets in the Western United States. We have developed an ethanol
distribution network for delivery of ethanol by truck to virtually every significant fuel terminal as well as to numerous smaller
fuel terminals throughout California and other Western states. Fuel terminals have limited storage capacity and we have been
successful in securing storage tanks at many of the terminals we service. In addition, we have an extensive network of third-
party delivery trucks available to deliver ethanol throughout the Western United States.

Our  operational  expertise.  We  began  managing  ethanol  production  facilities  in  2006.  We  believe  that  we  have  obtained
operational expertise and know-how that can be used to continue operating the Pacific Ethanol Plants and provide operational
services to third party facilities.

Our strategic locations. We believe that our focus on developing and acquiring ethanol production facilities in markets where
local  characteristics  create  the  opportunity  to  capture  a  significant  production  and  shipping  cost  advantage  over  competing
ethanol  production  facilities  provides  us  with  competitive  advantages,  including  transportation  cost,  delivery  timing  and
logistical advantages as well as higher margins associated with the local sale of WDG and other co-products.

Our  low  carbon-intensity  ethanol.  The  California  Air  Resources  Board  recently  enacted  a  low  carbon  fuels  standard  for
transportation fuels. If the standard goes into effect, carbon emission standards placed on ethanol produced in California will
be  higher  than  in  other  states,  significantly  favoring  low  carbon-intensity  fuels.  The  ethanol  produced  in  California  by  the
Pacific Ethanol Plants and certain other California producers, all of which we market, will have a lower carbon-intensity rating
than  either  gasoline  or  ethanol  produced  in  the  mid-west,  and  will  therefore  be  a  superior  product  for  our  California
customers. However, enforcement of California’s low carbon fuels standard was recently halted by the U.S. District Court on
federal constitutional grounds, a decision that has been appealed by the California Air Resources Board.

· Modern technologies. The Pacific Ethanol Plants use the latest production technologies to take advantage of state-of-the-art
technical and operational efficiencies in order to achieve lower operating costs and more efficient production of ethanol and its
co-products and reduce our use of carbon-based fuels.

·

Our experienced management. Neil M. Koehler, our President and Chief Executive Officer, has over 30 years of experience
in  the  ethanol  production,  sales  and  marketing  industry.  Mr.  Koehler  is  a  Director  of  the  California  Renewable  Fuels
Partnership,  a  Director  of  the  Renewable  Fuels  Association,  or  RFA,  and  is  a  frequent  speaker  on  the  issue  of  renewable
fuels  and  ethanol  marketing  and  production.  In  addition  to  Mr.  Koehler,  we  have  seasoned  managers  with  many  years  of
experience in the ethanol, fuel and energy industries leading our various departments. We believe that the experience of our
management  over  the  past  two  decades  and  our  ethanol  marketing  operations  have  enabled  us  to  establish  valuable
relationships in the ethanol industry and understand the business of marketing and producing ethanol and its co-products.

We believe that these advantages will allow us to capture an increasing share of the total market for ethanol and its co-products.

4

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Industry Overview and Market Opportunity

Overview of Ethanol Market

The primary applications for fuel-grade ethanol in the United States include:

·

·

·

Octane enhancer. On average, regular unleaded gasoline has an octane rating of 87 and premium unleaded gasoline has an
octane rating of 91. In contrast, pure ethanol has an average octane rating of 113. Adding ethanol to gasoline enables refiners
to produce greater quantities of lower octane blend stock with an octane rating of less than 87 before blending. In addition,
ethanol is commonly added to finished regular grade gasoline as a means of producing higher octane mid-grade and premium
gasoline.

Renewable  fuels.  Ethanol  is  blended  with  gasoline  in  order  to  enable  gasoline  refiners  to  comply  with  a  variety  of
governmental programs, in particular, the national Renewable Fuel Standard, or national RFS, which was enacted to promote
alternatives to fossil fuels. See “—Governmental Regulation.”

Fuel blending. In addition to its performance and environmental benefits, ethanol is used to extend fuel supplies. As the need
for automotive fuel in the United States increases and the dependence on foreign crude oil and refined products grows, the
United States is increasingly seeking domestic sources of fuel. Much of the ethanol blending throughout the United States is
done for the purpose of extending the volume of fuel sold at the gasoline pump.

The  United  States  ethanol  industry  is  highly  dependent  upon  federal  and  state  legislation  and  regulation.  For  example,  the  Energy
Independence  and  Security  Act  of  2007,  which  was  signed  into  law  in  December  2007,  significantly  increased  the  prior  national  RFS.  The
national RFS increases the mandated use of all renewable fuels to approximately 15.2 billion gallons in 2012 and 16.6 billion gallons in 2013.
Under  the  national  RFS,  the  mandated  use  of  all  renewable  fuels  rises  incrementally  in  succeeding  years  and  peaks  at  36.0  billion  gallons  by
2022. Under the national RFS, approximately 13.2 billion gallons in 2012 and 13.8 billion gallons in 2013 are required from conventional, or
corn-based, ethanol, which also rises incrementally in succeeding years and peaks at 15.0 billion gallons by 2015. We believe that these increases
will bolster demand for ethanol.

The State of California recently adopted a low carbon fuels standard for transportation fuels. Originally intended to go into effect on
January  1,  2011,  the  enforcement  of  the  low  carbon  fuels  standard  was  halted  on  December  29,  2011  by  the  U.S.  District  Court  on  federal
constitutional grounds. The California Air Resources Board has appealed that decision. The state of California estimates that the standard will
have the effect of increasing current renewable fuels use in California by three to five times by 2020.

According to the RFA, the domestic ethanol industry produced approximately 13.9 billion gallons of ethanol in 2011. We believe that
the ethanol market in California alone represented approximately 10% of the national market. However, the Western United States has relatively
few ethanol facilities and local ethanol production levels are substantially below the local demand for ethanol. The balance of ethanol is shipped
via rail from the Midwest to the Western United States. Gasoline and diesel fuel that supply the major fuel terminals are  shipped  in  pipelines
throughout portions of the Western United States. Unlike gasoline and diesel fuel, however, ethanol is not shipped in these pipelines because
ethanol has an affinity for mixing with water already present in the pipelines. When mixed, water dilutes ethanol and creates significant quality
control issues. Therefore, ethanol must be trucked from rail terminals to regional fuel terminals, or blending racks. In addition, we believe that
ethanol  prices  in  the  Western  United  States  are  typically  $0.15  to  $0.20  per  gallon  higher  than  in  the  Midwest  due  to  the  freight  costs  of
delivering ethanol from Midwest production facilities.

5

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
We believe that approximately 90% of the ethanol produced in the United States is made in the Midwest from corn. According to the
Department  of  Energy,  or  DOE,  ethanol  is  generally  blended  at  10%  by  volume,  but  is  also  blended  at  up  to  85%  by  volume  for  vehicles
designed to operate on 85% ethanol. The Environmental Protection Agency, or EPA, recently increased the allowable blend of ethanol in gasoline
from  10%  to  15%  for  model  year  2001  and  newer  automobiles,  pending  final  application  by  blenders  who  will  sell  E15,  and  in  some  cases,
approval by certain state regulatory authorities. Compared to gasoline, ethanol is generally considered to be cleaner burning and contains higher
octane. We anticipate that the increasing demand for transportation fuels coupled with limited opportunities for gasoline refinery expansions and
the growing importance of reducing CO2 emissions through the use of renewable fuels will generate additional growth in the demand for ethanol
in the Western United States.

According  to  the  DOE,  total  annual  gasoline  consumption  in  the  United  States  is  approximately  137  billion  gallons  and  total  annual
ethanol  consumption  represented  approximately    10%  of  this  amount  in  2011.  We  believe  that  the  domestic  ethanol  industry  has  substantial
potential  for  growth  to  initially  reach  the  10%  blend  ratio,  increasing  as  the  industry  blends  up  to  15%,  which  equals  an  annual  demand  of
between 13.7 billion gallons and 20.0 billion gallons of ethanol. Furthermore, the national RFS requires an increase of up to 36 billion gallons of
ethanol  annually  by  2022,  subject  to  an  annual  EPA  review  to  adjust  targets  based  on  availability  of  commercially  produced  advanced  and
cellulose biofuels.

Overview of Ethanol Production Process

The  production  of  ethanol  from  starch-  or  sugar-based  feedstocks  has  been  refined  considerably  in  recent  years,  leading  to  a  highly-
efficient process that we believe now yields substantially more energy from ethanol and its co-products than is required to make the products. The
modern production of ethanol requires large amounts of corn, or other high-starch grains, and water as well as chemicals, enzymes and yeast, and
denaturants including unleaded gasoline or liquid natural gas, in addition to natural gas and electricity.

In  the  dry  milling  process,  corn  or  other  high-starch  grains  are  first  ground  into  meal  and  then  slurried  with  water  to  form  a  mash.
Enzymes are then added to the mash to convert the starch into the simple sugar, dextrose. Ammonia is also added for acidic (pH) control and as a
nutrient for the yeast. The mash is processed through a high temperature cooking procedure, which reduces bacteria levels prior to fermentation.
The mash is then cooled and transferred to fermenters, where yeast is added and the conversion of sugar to ethanol and CO2 begins.

After  fermentation,  the  resulting  “beer”  is  transferred  to  distillation,  where  the  ethanol  is  separated  from  the  residual  “stillage.”  The
ethanol  is  concentrated  to  190  proof  using  conventional  distillation  methods  and  then  is  dehydrated  to  approximately  200  proof,  representing
100% alcohol levels, in a molecular sieve system. The resulting anhydrous ethanol is then blended with about 5% denaturant, which is usually
gasoline, and is then ready for shipment to market.

The  residual  stillage  is  separated  into  a  coarse  grain  portion  and  a  liquid  portion  through  a  centrifugation  process.  The  soluble  liquid
portion is concentrated to about 40% dissolved solids by an evaporation process. This intermediate state is called condensed distillers solubles, or
syrup. The coarse grain and syrup portions are then mixed to produce WDG or can be mixed and dried to produce dried distillers grains with
solubles, or DDGS. Both WDG and DDGS are high-protein animal feed products.

6

 
 
 
 
 
 
 
 
Overview of Distillers Grains Market

Most distillers grains are produced in the Midwest, where producers dry the grains before shipping. Successful and profitable delivery
of DDGS from the Midwest to markets in the Western United States faces a number of challenges, including drying of distiller grains which may
increase  the  energy  cost  to  dry  the  grains  and  reduce  the  quality  of  the  feed  product,  and  longer  distance  to  market,  which  may  increase  the
handling and transportation costs to deliver the grains to market. By not drying the distillers grains and by shipping WDG locally, we believe that
we will be able to better preserve the feed value of this product, as the WDG retains a higher percentage of nutrients than DDGS.

Historically, the market price for distillers grains has generally tracked the value of corn. We believe that the market price of DDGS is
determined by a number of factors, including the market value of corn, soybean meal and other competitive ingredients, the performance or value
of DDGS in a particular feed formulation and general market forces of supply and demand. The market price of distillers grains is also often
influenced by nutritional models that calculate the feed value of distillers grains by nutritional content, as well as reliability of consistent supply.

Customers

We sell ethanol produced by the Pacific Ethanol Plants and other third-parties to various customers in the Western United States. We
also  arrange  for  transportation,  storage  and  delivery  of  ethanol  purchased  by  our  customers  through  our  agreements  with  third-party  service
providers.  In  addition,  we  sell  WDG  produced  by  the  Pacific  Ethanol  Plants  to  customers  comprised  of  dairies  and  feedlots  located  near  the
Pacific Ethanol Plants.

During 2011 and 2010, we produced or purchased ethanol from third parties and resold an aggregate of approximately 283 million and
226 million gallons of fuel-grade ethanol to approximately 55 and 57 customers, respectively. Sales to our largest customer, Chevron Products
USA, in 2011 and 2010 represented approximately 22% and 19%, of our net sales, respectively. Sales to each of our other customers represented
less than 10% of our net sales in each of 2011 and 2010.

Most of the major metropolitan areas in the Western United States have fuel terminals served by rail, but other major metropolitan areas
and more remote smaller cities and rural areas do not. We believe that we have a competitive advantage due to our experience in marketing to the
segment of customers in major metropolitan and rural markets in the Western United States. We manage the complicated logistics of shipping
ethanol  purchased  from  third-parties  from  the  Midwest  by  rail  to  intermediate  storage  locations  throughout  the  Western  United  States  and
trucking the ethanol from these storage locations to blending racks where the ethanol is blended with gasoline. We believe that by establishing an
efficient  service  for  truck  deliveries  to  these  more  remote  locations,  we  have  differentiated  ourselves  from  our  competitors.  In  addition,  by
producing  ethanol  in  the  Western  United  States,  we  believe  that  we  will  benefit  from  our  ability  to  increase  spot  sales  of  ethanol  from  this
additional supply following ethanol price spikes caused from time to time by rail delays in delivering ethanol from the Midwest to the Western
United States. In addition to producing ethanol, we produce ethanol co-products, including WDG. We endeavor to position WDG as the protein
feed of choice for cattle based on its nutritional  composition,  consistency  of  quality  and  delivery,  ease  of  handling  and  its  mixing  ability  with
other feed ingredients. We are one of the few WDG producers with production facilities located in the Western United States and we primarily
sell our WDG to dairy farmers in close proximity to the Pacific Ethanol Plants.

7

 
 
 
 
 
 
 
 
 
Suppliers

Our  marketing  operations  are  dependent  upon  various  third-party  producers  of  fuel-grade  ethanol.  In  addition,  we  provide  ethanol
transportation,  storage  and  delivery  services  through  third-party  service  providers  with  whom  we  have  contracted  to  receive  ethanol  at  agreed
upon locations from our suppliers and to store and/or deliver the ethanol to agreed-upon locations on behalf of our customers. These contracts
generally run from year-to-year, subject to termination by either party upon advance written notice before the end of the then current annual term.

During  2011  and  2010,  we  purchased  fuel-grade  ethanol  and  corn,  the  largest  component  in  producing  ethanol,  from  our  suppliers.
Purchases from our three largest suppliers in 2011 represented approximately 64% of our total ethanol and corn purchases. Purchases from our
three  largest  suppliers  in  2010  represented  approximately  60%  of  our  total  ethanol  and  corn  purchases.  Purchases  from  each  of  our  other
suppliers represented less than 10% of total ethanol and corn purchases in each of 2011 and 2010.

The ethanol production operations of the Pacific Ethanol Plants are dependent upon various raw materials suppliers, including suppliers
of  corn,  natural  gas,  electricity  and  water.  The  cost  of  corn  is  the  most  important  variable  cost  associated  with  the  production  of  ethanol.  An
ethanol facility must be able to efficiently ship corn from the Midwest via rail and cheaply and reliably truck ethanol to local markets. We believe
that our existing grain receiving facilities at the Pacific Ethanol Plants are some of the most efficient grain receiving facilities in the United States.
We source corn for the Pacific Ethanol Plants using standard contracts, including spot purchase, forward purchase and basis contracts. When
resources  are  available  to  do  so,  we  seek  to  limit  the  exposure  of  the  Pacific  Ethanol  Plants  to  raw  material  price  fluctuations  by  purchasing
forward a portion of their corn requirements on a fixed price basis and by purchasing corn and other raw materials futures contracts.

Pacific Ethanol Plants

The table below provides an overview of the Pacific Ethanol Plants owned by New PE Holdco and operated by us. Three of the Pacific
Ethanol Plants are currently operational. When market conditions permit, and with approval of New PE Holdco, we intend to resume operations
at the Madera, California facility.

Location
Quarter/Year operations began
Operating status
Approximate maximum annual ethanol production

capacity (in millions of gallons)

Ownership by New PE Holdco
Primary energy source
Estimated annual WDG production capacity (in

Madera
Facility
Madera, CA
4th Qtr., 2006
Idled

40
100%
Natural Gas

Columbia
Facility
Boardman, OR
3rd Qtr., 2007
Operating

40
100%
Natural Gas

Magic Valley
Facility
Burley, ID
2nd Qtr., 2008
Operating

60
100%
Natural Gas

Stockton
Facility
Stockton, CA
3rd Qtr., 2008
Operating

60
100%
Natural Gas

thousands of tons)

293

293

418

418

8

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Commodity Risk Management

We employ various risk mitigation techniques. For example, we may seek to mitigate our exposure to commodity price fluctuations by
purchasing forward a portion of our corn and natural gas requirements through fixed-price or variable-price contracts with our suppliers, as well
as  entering  into  derivative  contracts  for  ethanol,  corn  and  natural  gas.  To  mitigate  ethanol  inventory  price  risks,  we  may  sell  a  portion  of  our
production forward under fixed- or index-price contracts, or both. We may hedge a portion of the price risks by selling exchange-traded futures
contracts. Proper execution of these risk mitigation strategies can reduce the volatility of our gross profit margins. However, given the nature of
our business, we cannot effectively hedge against extreme volatility or certain market conditions. For example, over a period of four weeks at the
end of 2011, the west coast market price of ethanol declined by approximately 28%, which substantially reduced our fourth quarter and full year
profitability.

Marketing Arrangements

In addition to our marketing agreements with the Plant Owners whose facilities are operational to market all of the ethanol produced at
those Pacific Ethanol Plants, we have exclusive ethanol marketing agreements with third-party ethanol producers, including Calgren Renewable
Fuels, LLC, Front Range Energy, LLC, or Front Range, and AE Advanced Fuels Keyes, Inc. to market and sell their entire ethanol production
volumes. Calgren Renewable Fuels, LLC owns and operates an ethanol production facility in Pixley, California with annual production capacity
of 55 million gallons. Front Range owns and operates an ethanol production facility in Windsor, Colorado with annual production capacity of 50
million gallons. AE Advanced Fuels Keyes, Inc. owns and operates an ethanol production facility in Keyes, California with annual production
capacity of 55 million gallons. We intend to evaluate and pursue opportunities to enter into marketing arrangements with other ethanol producers
as business prospects make these marketing arrangements advisable.

Competition

We operate in the highly competitive ethanol marketing and production industry. The largest ethanol producers in the United States are
Archer Daniels Midland Company, or ADM, and Valero Energy Corporation, or Valero, collectively with over 20% of the total installed capacity
of ethanol in the United States. In addition, there are many mid-size producers with several plants under ownership, smaller producers with one
or  two  plants,  and  several  ethanol  marketers  that  create  significant  competition.  Overall,  we  believe  there  are  over  200  ethanol  facilities  in  the
United States with an installed operating capacity of approximately 14.9 billion gallons and many brokers and marketers with whom we compete
for sales of ethanol and its co-products.

We believe that our competitive strengths include our strategic locations in the Western United States, our extensive ethanol distribution
network,  our  extensive  customer  and  supplier  relationships,  our  use  of  modern  technologies  at  our  production  facilities  and  our  experienced
management. We believe that these advantages will allow us to capture an increasing share of the total market for ethanol and its co-products and
earn favorable margins on ethanol and its co-products that we produce.

Our  strategic  focus  on  particular  geographic  locations  designed  to  exploit  cost  efficiencies  may  nevertheless  result  in  higher  than
expected costs as a result of more expensive raw materials and related shipping costs, including corn, which generally must be transported from
the Midwest. If the costs of producing and shipping ethanol and its co-products over short distances are not advantageous relative to the costs of
obtaining raw materials from the Midwest, then the planned benefits of our strategic locations may not be realized.

9

 
 
 
 
 
 
 
 
 
Governmental Regulation

Our business is subject to federal, state and local laws and regulations relating to the production of renewable fuels, the protection of the
environment and in support of the corn and ethanol industries. These laws, their underlying regulatory requirements and their enforcement, some
of which are described below, impact, or may impact, our existing and proposed business operations by imposing:

·

·

·

·

restrictions on our existing and proposed business operations and/or the need to install enhanced or additional controls;

the need to obtain and comply with permits and authorizations;

liability for exceeding applicable permit limits or legal requirements, in some cases for the remediation of contaminated soil
and  groundwater  at  our  facilities,  contiguous  and  adjacent  properties  and  other  properties  owned  and/or  operated  by  third
parties; and

specifications for the ethanol we market and produce.

In addition, some governmental regulations are helpful to our ethanol marketing and production business. The ethanol fuel industry is
greatly dependent upon mandates and environmental regulations that favor the use of ethanol in motor fuel blends in North America. Some of the
governmental regulations applicable to our ethanol marketing and production business are briefly described below.

Clean Air Act Amendments of 1990

In November 1990, a comprehensive amendment to the Clean Air Act of 1977, or Clean Air Act, established a series of requirements
and  restrictions  for  gasoline  content  designed  to  reduce  air  pollution  in  identified  problem  areas  of  the  United  States.  The  two  principal
components  affecting  motor  fuel  content  are  the  oxygenated  fuels  program,  which  is  administered  by  states  under  federal  guidelines,  and  a
federally supervised reformulated gasoline, or RFG, program.

Oxygenated Fuels Program

Federal  law  requires  the  sale  of  oxygenated  fuels  in  a  number  of  carbon  monoxide  non-attainment  Metropolitan  Statistical  Areas,  or
MSAs, during at least four winter months, typically November through February. Any additional MSAs not in compliance for a period of two
consecutive years may also be included in the program. The EPA Administrator is afforded flexibility in requiring a shorter or longer period of
use depending upon available supplies of oxygenated fuels or the level of non-attainment. This law currently affects the Los Angeles area, where
over 150 million gallons of ethanol are blended with gasoline each winter.

Reformulated Gasoline Program

The  Clean  Air  Act  Amendments  of  1990  established  special  standards  effective  January  1,  1995  for  the  most  polluted  ozone  non-
attainment  areas:  Los  Angeles  Area,  Baltimore,  Chicago  Area,  Houston  Area,  Milwaukee  Area,  New  York  City  Area,  Hartford,  Philadelphia
Area and San Diego, with provisions to add other areas in the future if conditions warrant. California’s San Joaquin Valley, the location of both
the Madera and Stockton facilities, was added in 2002. At the outset of the RFG program there were a total of 96 MSAs not in compliance with
clean air standards for ozone, which represents approximately 60% of the national market.

The RFG program also includes a provision that allows individual states to “opt into” the federal program by request of the governor, to
adopt  standards  promulgated  by  California  that  are  stricter  than  federal  standards,  or  to  offer  alternative  programs  designed  to  reduce  ozone
levels. Nearly the entire Northeast and middle Atlantic areas from Washington, D.C. to Boston not under the federal mandate have “opted into”
the federal standards.

10

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
These state mandates in recent years have created a variety of gasoline grades to meet different regional environmental requirements. The
RFG program accounts for about 30% of nationwide gasoline consumption. California refiners blend a minimum of 2.0% oxygen by weight,
which is the equivalent of 5.7% ethanol in every gallon of gasoline, or roughly 1.0 billion gallons of ethanol per year in California alone.

National Energy Legislation

In addition, the Energy Independence and Security Act of 2007, which was signed into law in December 2007, significantly increased
the prior national RFS. The national RFS significantly increases the mandated use of renewable fuels to approximately 15.2 billion gallons in
2012, and rises incrementally and peaks at 36.0 billion gallons by 2022.

E15 (a Blend of Gasoline and Ethanol)

In October 2010, the EPA partially granted a waiver request application submitted under the Clean Air Act. This partial waiver allows
fuel and fuel additive manufacturers to introduce into commerce gasoline that contains greater than 10 volume percent of ethanol, up to 15 volume
percent of ethanol, or E15, for use in some motor vehicles once other conditions are fulfilled. This waiver only applies to vehicles from model
year 2001 and beyond. It is important to remember that there are a number of additional steps that must be completed – some of which are not
under  EPA  control  –  to  allow  the  sale  and  distribution  of  E15.  These  include,  but  are  not  limited  to,  submission  of  a  complete  E15  fuels
registration application by industry, and, for certain states, changes to some states’ laws to allow for the use of E15.

State Energy Legislation and Regulations

In  January  2007,  California’s  Governor  signed  an  executive  order  directing  the  California  Air  Resources  Board  to  implement
California’s low carbon fuels standard for transportation fuels. The enforcement of the low carbon fuels standard was recently halted by the U.S.
District  Court  on  federal  constitutional  grounds,  a  decision  that  has  been  appealed  by  the  California  Air  Resources  Board.  If  enforced,  the
Governor’s office estimates that the standard will have the effect of increasing current renewable fuels use in California by three to five times by
2020.

The State of California has established a policy to support ethanol produced in California with the California Ethanol Producer Incentive
Program, or CEPIP, a producer incentive which offers up to $0.25 per gallon when ethanol production profitability is less than prescribed levels
determined by the California Energy Commission, or CEC. The Pacific Ethanol Plants located in California are eligible for the CEPIP, and the
Stockton facility participated in the program in 2010 and 2011. For 2012, this program is currently not funded and no assurances can be given
that the CEC will decide to fund the CEPIP or that the CEC will not alter the program thresholds, participant eligibility or other policy choices that
may impact the ability of the Pacific Ethanol Plants located in California to be eligible for the CEPIP.

Additional Environmental Regulations

In addition to the governmental regulations applicable to the ethanol marketing and production industries described above, our business
is subject to additional federal, state and local environmental regulations, including regulations established by the EPA, the San Joaquin Valley
Regional Water Quality Control Board, the San Joaquin Valley Air Pollution Control District and the California Air Resources Board. We cannot
predict  the  manner  or  extent  to  which  these  regulations  will  harm  or  help  our  business  or  the  ethanol  production  and  marketing  industry  in
general.

Employees

As of March 7, 2012, we had approximately 155 full-time employees. We believe that our employees are highly-skilled, and our success
will depend in part upon our ability to retain our employees and attract new qualified employees, many of whom are in great demand. We have
never  had  a  work  stoppage  or  strike,  and  no  employees  are  presently  represented  by  a  labor  union  or  covered  by  a  collective  bargaining
agreement. We consider our relations with our employees to be good.

11

 
 
 
 
 
 
 
 
 
 
 
 
 
 
Item 1A.

Risk Factors.

Risks Related to our Business

We  have  incurred  significant  losses  and  negative  operating  cash  flow  in  the  past  and  we  may  incur  significant  losses  and  negative
operating  cash  flow  in  the  foreseeable  future.  Continued  losses  and  negative  operating  cash  flow  will  hamper  our  operations  and
prevent us from expanding our business.

We  have  incurred  significant  losses  and  negative  operating  cash  flow  in  the  past.  For  2011,  we  incurred  a  consolidated  net  loss  of
approximately  $4.0  million  and  negative  operating  cash  flow  of  approximately  $4.0  million.  For  2009,  we  incurred  a  consolidated  net  loss  of
approximately $308.7 million and negative operating cash flow of approximately $6.3 million. Although we reported consolidated net income of
$69.5 million for 2010, primarily due to a $119.4 million net gain in connection with the completion of the bankruptcy proceedings of our former
indirect  wholly-owned  subsidiaries,  we  incurred  negative  operating  cash  flow  of  approximately  $37.0  million.  We  believe  that  we  may  incur
significant losses and negative operating cash flow in the foreseeable future. We expect to rely on cash on hand, cash, if any, generated from our
operations and cash, generated from future financing activities, if any, to fund all of the cash requirements of our business. Continued losses and
negative operating cash flow may hamper our operations and impede us from expanding our business. Continued losses and negative operating
cash flow are also likely to make our capital raising needs more acute while limiting our ability to raise additional financing on favorable terms.

The results of our operations and our ability to operate at a profit is largely dependent on managing the prices of  corn,  natural  gas,
ethanol and WDG, all of which are subject to significant volatility and uncertainty.

Our results of operations are highly impacted by commodity prices, including the cost of corn and natural gas that we must purchase,
and  the  prices  of  ethanol  and  WDG  that  we  sell.  Prices  and  supplies  are  subject  to  and  determined  by  market  forces  over  which  we  have  no
control,  such  as  weather,  domestic  and  global  demand,  shortages,  export  prices  and  various  governmental  policies  in  the  United  States  and
around  the  world.  For  example,  over  a  period  of  four  weeks  at  the  end  of  2011,  the  market  price  of  ethanol  declined  by  approximately  28%,
which substantially reduced our fourth quarter and full year profitability.

As a result of price volatility of corn, natural gas, ethanol and WDG, our results of operations may fluctuate substantially. In addition,
increases in corn or natural gas prices or decreases in ethanol or WDG prices may make it unprofitable to operate. In fact, some of our marketing
activities will likely be unprofitable in a market of generally declining ethanol prices due to the nature of our business. For example, to satisfy
customer demands, we must maintain certain quantities of ethanol inventory for subsequent resale. Moreover, we procure much of our inventory
outside the context of a marketing arrangement and therefore must buy ethanol at a price established at the time of purchase and sell ethanol at an
index price established later at the time of sale that is generally reflective of movements in the market price of ethanol. As a result, our margins for
ethanol sold in these transactions generally decline and may turn negative as the market price of ethanol declines.

No assurance can be given that corn or natural gas can be purchased at, or near, current or any particular prices or that ethanol or WDG
will sell at, or near, current or any particular prices. Consequently, our results of operations and financial position may be adversely affected by
increases in the price of corn or natural gas or decreases in the price of ethanol or WDG.

12

 
 
 
 
 
 
 
 
 
 
Over the past several years, the spread between ethanol and corn prices has fluctuated widely and narrowed significantly. Fluctuations
are likely to continue to occur. A sustained narrow spread or any further reduction in the spread between ethanol and corn prices, whether as a
result of sustained high or increased corn prices or sustained low or decreased ethanol prices, would adversely affect our results of operations
and financial position. Further, combined revenues from sales of ethanol and WDG could decline below the marginal cost of production, which
could cause us to suspend production of ethanol and WDG at some or all of the Pacific Ethanol Plants.

We are a minority member of New PE Holdco with limited control over certain business decisions. As a result, our interests may not be
as well served as if we were in control of all aspects of the business of New PE Holdco, which could adversely affect its contribution to
our results of operations and our business prospects related to that entity.

New PE Holdco owns, and we operate, the Pacific Ethanol Plants. We have a 34% ownership interest in New PE Holdco. While this
represents the single largest ownership position in New PE Holdco and although we have the power to make decisions regarding the activities of
New  PE  Holdco  that  most  significantly  impact  New  PE  Holdco’s  economic  performance  by  virtue  of  the  terms  of  the  asset  management
agreement we have with New PE Holdco and the Plant Owners, the consent of the other owners is required to approve certain actions, including
incurring new indebtedness or refinancing existing indebtedness, entering into contracts with a term of greater than one year or a value of more
than $1.0 million, making of certain capital expenditures, restarting an idle plant and sale or disposition of any plant assets. Some actions require
the consent of all owners and others require the consent of holders of 67% or 85% of the ownership interests. In addition, we are precluded from
voting on matters in which we have a direct financial interest, such as the amendment or extension of the asset management agreement we have
with New PE Holdco and the Plant Owners and/or the marketing agreements we have with the Plant Owners whose facilities are operational. As
a  result  of  these  limitations,  we  are  dependent  on  the  business  judgment  of  the  other  owners  of  New  PE  Holdco  in  respect  of  a  number  of
significant matters bearing on the operations of the Pacific Ethanol Plants. Consequently, our interests may not be as well served as if we were in
control of New PE Holdco, and the contribution by New PE Holdco to our results of operations and our business prospects related to that entity
may be adversely affected by our lack of control over that entity.

The termination of the asset management agreement and marketing agreements to which we are a party relating to New PE Holdco and
the Pacific Ethanol Plants could lead to the deconsolidation of the financial statements of New PE Holdco. If that were to occur, our
results of operations could be adversely affected.

The asset management agreement and marketing agreements relating to New PE Holdco and the Pacific Ethanol Plants vest with us the
power to direct substantially all of the activities of New PE Holdco that most significantly impact New PE Holdco’s economic performance. In
addition, through our ownership interest in New PE Holdco, we are in a position to absorb losses and receive benefits from New PE Holdco that
could potentially be significant to New PE Holdco. As a result, we are required to consolidate the financial results of New PE Holdco. The asset
management and marketing agreements have terms of one year and automatically renew for successive one year terms unless terminated by any
party by giving notice 90 days prior to the end of any one-year period. If any of these agreements were terminated, we would be required to
reassess whether we would continue to have a controlling financial interest in New PE Holdco. If we no longer had a controlling financial interest
in New PE Holdco, we would no longer be able to account for the financial results of New PE Holdco on a consolidated basis. If that were to
occur, our results of operations and financial condition could be adversely affected.

13

 
 
 
 
 
 
 
Increased ethanol production may cause a decline in ethanol prices or prevent ethanol prices from rising, and may have other negative
effects, adversely impacting our results of operations, cash flows and financial condition.

We  believe  that  the  most  significant  factor  influencing  the  price  of  ethanol  has  been  the  substantial  increase  in  ethanol  production  in
recent years. Domestic ethanol production capacity has increased steadily from an annualized rate of 1.5 billion gallons per year in January 1999
to 13.5 billion gallons in 2010 according to the RFA. See “Business—Governmental Regulation.” However, increases in the demand for ethanol
may not be commensurate with increases in the supply of ethanol, thus leading to lower ethanol prices. Demand for ethanol could be impaired
due to a number of factors, including regulatory developments and reduced United States gasoline consumption. Reduced gasoline consumption
has occurred in the past and could occur in the future as a result of increased gasoline or oil prices.

The  market  price  of  ethanol  is  volatile  and  subject  to  large  fluctuations,  which  may  cause  our  profitability  or  losses  to  fluctuate
significantly.

The market price of ethanol is volatile and subject to large fluctuations. The market price of ethanol is dependent upon many factors,
including the supply of ethanol and the price of gasoline, which is in turn dependent upon the price of petroleum which is highly volatile and
difficult to forecast. For example, although the market price of ethanol increased by approximately 42% for the year ended December 31, 2011 as
compared  to  2010,  during  a  period  of  four  weeks  at  the  end  of  2011,  the  market  price  of  ethanol  declined  by  approximately  28%,  which
substantially reduced our fourth quarter and full year profitability. Fluctuations in the market price of ethanol may cause our profitability or losses
to fluctuate significantly.

Some  of  our  marketing  activities  will  likely  be  unprofitable  in  a  market  of  generally  declining  ethanol  prices  due  to  the  nature  of  our
business.

Some of our marketing activities will likely be unprofitable in a market of generally declining ethanol prices due to the nature of our
business. For example, to satisfy customer demands, we must maintain certain quantities of ethanol inventory for subsequent resale. Moreover,
we procure much of our inventory outside the context of a marketing arrangement and therefore must buy ethanol at a price established at the time
of purchase and sell ethanol at an index price established later at the time of sale that is generally reflective of movements in the market price of
ethanol. As a result, our margins for ethanol sold in these transactions generally decline and may turn negative as the market  price  of  ethanol
declines.

Disruptions in ethanol production infrastructure may adversely affect our business, results of operations and financial condition.

Our business depends on the continuing availability of rail, road, port, storage and distribution infrastructure. In particular, due to limited
storage capacity at the Pacific Ethanol Plants and other considerations related to production efficiencies, the Pacific Ethanol Plants depend on just-
in-time  delivery  of  corn.  The  production  of  ethanol  also  requires  a  significant  and  uninterrupted  supply  of  other  raw  materials  and  energy,
primarily  water,  electricity  and  natural  gas.  The  prices  of  electricity  and  natural  gas  have  fluctuated  significantly  in  the  past  and  may  fluctuate
significantly in the future. Local water, electricity and gas utilities may not be able to reliably supply the water, electricity and natural gas that the
Pacific Ethanol Plants will need or may not be  able  to  supply  those  resources  on  acceptable  terms.  Any  disruptions  in  the  ethanol  production
infrastructure, whether caused by labor difficulties, earthquakes, storms, other natural disasters or human error or malfeasance or other reasons,
could prevent timely deliveries of corn or other raw materials and energy and may require the Pacific Ethanol Plants to halt production which
could have a material adverse effect on our business, results of operations and financial condition.

14

 
 
 
 
 
 
 
 
 
 
The volatility in the financial and commodities markets and sustained weakening of the economy could further significantly impact our
business and financial condition and may limit our ability to raise additional capital.

As  widely  reported,  financial  markets  in  the  United  States  and  the  rest  of  the  world  have  experienced  extreme  disruption,  including,
among other things, extreme volatility in securities and commodities prices, as well as severely diminished liquidity and credit availability. As a
result, we believe that our ability to access capital markets and raise funds required for our operations may be severely restricted at a time when
we may need to do so, which could have a material adverse effect on our ability to meet our current and future funding requirements and on our
ability  to  react  to  changing  economic  and  business  conditions.  We  are  not  able  to  predict  the  duration  or  severity  of  any  current  or  future
disruption  in  financial  markets,  fluctuations  in  the  price  of  crude  oil  or  other  adverse  economic  conditions  in  the  United  States.  However,  if
economic conditions worsen, it is likely that these factors would have a further adverse effect on our results of operations and future prospects
and may limit our ability to raise additional capital.

We and the Pacific Ethanol Plants may engage in hedging transactions and other risk mitigation strategies that could harm our results
of operations.

In an attempt to partially offset the effects of volatility of ethanol prices and corn and natural gas costs, the Pacific Ethanol Plants may
enter into contracts to fix the price of a portion of their ethanol production or purchase a portion of their corn or natural gas requirements on a
forward basis. In addition, we may engage in other hedging transactions involving exchange-traded futures contracts for corn, natural gas and
unleaded gasoline from time to time. The financial statement impact of these activities is dependent upon, among other things, the prices involved
and  our  ability  to  sell  sufficient  products  to  use  all  of  the  corn  and  natural  gas  for  which  forward  commitments  have  been  made.  Hedging
arrangements also expose us to the risk of financial loss in situations where the other party to the hedging contract defaults on its contract or, in
the case of exchange-traded contracts, where there is a change in the expected differential between the underlying price in the hedging agreement
and the actual prices paid or received by us. As a result, our results of operations and financial position may be adversely affected by fluctuations
in the price of corn, natural gas, ethanol and unleaded gasoline.

Operational  difficulties  at  the  Pacific  Ethanol  Plants  could  negatively  impact  sales  volumes  and  could  cause  us  to  incur  substantial
losses.

Operations at the Pacific Ethanol Plants are subject to labor disruptions, unscheduled downtimes and other operational hazards inherent
in  the  ethanol  production  industry,  including  equipment  failures,  fires,  explosions,  abnormal  pressures,  blowouts,  pipeline  ruptures,
transportation accidents and natural disasters. Some of these operational hazards may cause personal injury or loss of life, severe damage to or
destruction  of  property  and  equipment  or  environmental  damage,  and  may  result  in  suspension  of  operations  and  the  imposition  of  civil  or
criminal penalties. Insurance obtained by the Pacific Ethanol Plants may not be adequate to fully cover the potential operational hazards described
above or the Pacific Ethanol Plants may not be able to renew this insurance on commercially reasonable terms or at all.

Moreover,  the  production  facilities  at  the  Pacific  Ethanol  Plants  may  not  operate  as  planned  or  expected.  All  of  these  facilities  are
designed  to  operate  at  or  above  a  specified  production  capacity.  The  operation  of  these  facilities  is  and  will  be,  however,  subject  to  various
uncertainties. As a result, these facilities may not produce ethanol and its co-products at expected levels. In the event any of these facilities do not
run at their expected capacity levels, our business, results of operations and financial condition may be materially and adversely affected.

15

 
 
 
 
 
 
 
 
 
The  United  States  ethanol  industry  is  highly  dependent  upon  myriad  federal  and  state  legislation  and  regulation  and  any  changes  in
legislation or regulation could have a material adverse effect on our results of operations and financial condition.

Various  studies  have  criticized  the  efficiency  of  ethanol  in  general,  and  corn-based  ethanol  in  particular,  which  could  lead  to  the
reduction  or  repeal  of  mandates  that  require  the  use  and  domestic  production  of  ethanol  or  otherwise  negatively  impact  public
perception and acceptance of ethanol as an alternative fuel.

Although many trade groups, academics and governmental agencies have supported ethanol as a fuel additive that promotes a cleaner
environment, others have criticized ethanol production as consuming considerably more energy and emitting more greenhouse gases than other
biofuels and as potentially depleting water resources. Other studies have suggested that ethanol negatively impacts consumers by causing higher
prices  for  dairy,  meat  and  other  foodstuffs  from  livestock  that  consume  corn.  If  these  views  gain  acceptance,  support  for  existing  measures
requiring the use and domestic production of corn-based ethanol could decline, leading to a reduction or repeal of these measures. These views
could also negatively impact public perception of the ethanol industry and acceptance of ethanol as a component for blending in transportation
fuel.

Waivers  or  repeal  of  the  national  Renewable  Fuel  Standard’s  minimum  levels  of  renewable  fuels  included  in  gasoline  could  have  a
material adverse effect on our results of operations.

Shortly after passage of the Energy Independence and Security Act of 2007, which increased the minimum mandated required usage of
ethanol,  a  Congressional  sub-committee  held  hearings  on  the  potential  impact  of  the  national  RFS  on  commodity  prices.  While  no  action  was
taken by the sub-committee towards repeal of the national RFS, any attempt by Congress to re-visit, repeal or grant waivers of the national RFS
could adversely affect demand for ethanol and could have a material adverse effect on our results of operations and financial condition.

The ethanol production and marketing industry is extremely competitive. Many of our significant competitors have greater production
and financial resources  and one or more of these competitors could use their greater resources to gain market share at our expense. In
addition,  a  number  of  Kinergy’s  suppliers  may  circumvent  the  marketing  services  we  provide,  causing  our  sales  and  profitability  to
decline.

The ethanol production and marketing industry is extremely competitive. Many of our significant competitors in the ethanol production
and marketing industry, including ADM and Valero, have substantially greater production and/or financial resources. As a result, our competitors
may  be  able  to  compete  more  aggressively  and  sustain  that  competition  over  a  longer  period  of  time.  Successful  competition  will  require  a
continued high level of investment in marketing and customer service and support. Our limited resources relative to many significant competitors
may  cause  us  to  fail  to  anticipate  or  respond  adequately  to  new  developments  and  other  competitive  pressures.  This  failure  could  reduce  our
competitiveness and cause a decline in market share, sales and profitability. Even if sufficient funds are available, we may not be able to make the
modifications and improvements necessary to compete successfully.

We also face increasing competition from international suppliers. Currently, international suppliers produce ethanol primarily from sugar
cane and have cost structures that are generally substantially lower than the cost structures of the Pacific Ethanol Plants. Any increase in domestic
or  foreign  competition  could  cause  the  Pacific  Ethanol  Plants  to  reduce  their  prices  and  take  other  steps  to  compete  effectively,  which  could
adversely affect their and our results of operations and financial condition.

In addition, some of our suppliers are potential competitors and, especially if the price of ethanol reaches historically high levels, they
may seek to capture additional profits by circumventing our marketing services in favor of selling directly to our customers. If one or more of our
major suppliers, or numerous smaller suppliers, circumvent our marketing services, our sales and profitability may decline.

16

 
 
 
 
 
 
 
 
 
 
 
If Kinergy fails to satisfy its financial covenants under its credit facility, it may experience a loss or reduction of that facility, which would
have a material adverse effect on our financial condition and results of operations.

We  are  substantially  dependent  on  the  credit  facility  of  Kinergy  Marketing  LLC,  or  Kinergy,  to  help  finance  its  operations.  Kinergy
must satisfy quarterly financial covenants under its credit facility, including covenants regarding its quarterly EBITDA and fixed coverage ratios.
Kinergy will be in default under its credit facility if it fails to satisfy any financial covenant. A default may result in the loss or reduction of the
credit facility. The loss of Kinergy’s credit facility, or a significant reduction in Kinergy’s borrowing capacity under the facility, would result in
Kinergy’s inability to finance a significant portion of its business and would have a material adverse effect on our financial condition and results
of operations.

The  high  concentration  of  our  sales  within  the  ethanol  marketing  and  production  industry  could  result  in  a  significant  reduction  in
sales and negatively affect our profitability if demand for ethanol declines.

We expect to be completely focused on the marketing and production of ethanol and its co-products for the foreseeable future. We may
be  unable  to  shift  our  business  focus  away  from  the  marketing  and  production  of  ethanol  to  other  renewable  fuels  or  competing  products.
Accordingly, an industry shift away from ethanol or the emergence of new competing products may reduce the demand for ethanol. A downturn
in the demand for ethanol would likely materially and adversely affect our sales and profitability.

In  addition  to  ethanol  produced  by  the  Pacific  Ethanol  Plants,  we  also  depend  on  a  small  number  of  third-party  suppliers  for  a
significant portion of the ethanol we sell. If any of these suppliers does not continue to supply us with ethanol in adequate amounts, we
may be unable to satisfy the demands of our customers and our sales, profitability and relationships with our customers will be adversely
affected.

In  addition  to  the  ethanol  produced  by  the  Pacific  Ethanol  Plants,  we  also  depend  on  a  small  number  of  third-party  suppliers  for  a
significant  portion  of  the  ethanol  that  we  sell.  We  expect  to  continue  to  depend  for  the  foreseeable  future  upon  a  small  number  of  third-party
suppliers for a significant portion of the total amount of the ethanol that we sell. Our third-party suppliers are primarily located in the Midwestern
United States. The delivery of ethanol from these suppliers is therefore subject to delays resulting from inclement weather and other conditions. If
any  of  these  suppliers  is  unable  or  declines  for  any  reason  to  continue  to  supply  us  with  ethanol  in  adequate  amounts,  we  may  be  unable  to
replace that supplier and source other supplies of ethanol in a timely manner, or at all, to satisfy the demands of our customers. If this occurs, our
sales, profitability and our relationships with our customers will be adversely affected.

We may be adversely affected by environmental, health and safety laws, regulations and liabilities.

We  are  subject  to  various  federal,  state  and  local  environmental  laws  and  regulations,  including  those  relating  to  the  discharge  of
materials into the air, water and ground, the generation, storage, handling, use, transportation and disposal of hazardous materials, and the health
and safety of our employees. In addition, some of these laws and regulations require us to operate under permits that are subject to renewal or
modification. These laws, regulations and permits can often require expensive pollution control equipment or operational changes to limit actual
or  potential  impacts  to  the  environment.  A  violation  of  these  laws  and  regulations  or  permit  conditions  can  result  in  substantial  fines,  natural
resource damages, criminal sanctions, permit revocations and/or facility shutdowns. In addition, we have made, and expect to make, significant
capital expenditures on an ongoing basis to comply with increasingly stringent environmental laws, regulations and permits.

17

 
 
 
 
 
 
 
 
 
 
We may be liable for the investigation and cleanup of environmental contamination at each of the Pacific Ethanol Plants or other plants
that we operate and at off-site locations where we arrange for the disposal of hazardous substances. If these substances have been or are disposed
of  or  released  at  sites  that  undergo  investigation  and/or  remediation  by  regulatory  agencies,  we  may  be  responsible  under  the  Comprehensive
Environmental Response, Compensation and Liability Act of 1980, or other environmental laws for all or part of the costs of investigation and/or
remediation,  and  for  damages  to  natural  resources.  We  may  also  be  subject  to  related  claims  by  private  parties  alleging  property  damage  and
personal  injury  due  to  exposure  to  hazardous  or  other  materials  at  or  from  those  properties.  Some  of  these  matters  may  require  us  to  expend
significant amounts for investigation, cleanup or other costs.

In  addition,  new  laws,  new  interpretations  of  existing  laws,  increased  governmental  enforcement  of  environmental  laws  or  other
developments could require us to make significant additional expenditures. Continued government and public emphasis on environmental issues
can  be  expected  to  result  in  increased  future  investments  for  environmental  controls  at  the  Pacific  Ethanol  Plants.  Present  and  future
environmental laws and regulations, and interpretations of those laws and regulations, applicable to our operations, more vigorous enforcement
policies  and  discovery  of  currently  unknown  conditions  may  require  substantial  expenditures  that  could  have  a  material  adverse  effect  on  our
results of operations and financial condition.

The  hazards  and  risks  associated  with  producing  and  transporting  our  products  (including  fires,  natural  disasters,  explosions  and
abnormal  pressures  and  blowouts)  may  also  result  in  personal  injury  claims  or  damage  to  property  and  third  parties.  As  protection  against
operating hazards, we maintain insurance coverage against some, but not all, potential losses. However, we could sustain losses for uninsurable
or  uninsured  risks,  or  in  amounts  in  excess  of  existing  insurance  coverage.  Events  that  result  in  significant  personal  injury  or  damage  to  our
property or third parties or other losses that are not fully covered by insurance could have a material adverse effect on our results of operations
and financial condition.

If we are unable to attract and retain key personnel, our ability to operate effectively may be impaired.

Our  ability  to  operate  our  business  and  implement  strategies  depends,  in  part,  on  the  efforts  of  our  executive  officers  and  other  key
employees. Our future success will depend on, among other factors, our ability to retain our current key personnel and attract and retain qualified
future  key  personnel,  particularly  executive  management.  Failure  to  attract  or  retain  key  personnel  could  have  a  material  adverse  effect  on  our
business and results of operations.

We depend on a small number of customers for the majority of our sales. A reduction in business from any of these customers could
cause a significant decline in our overall sales and profitability.

The  majority  of  our  sales  are  generated  from  a  small  number  of  customers.  During  2010  and  2011,  one  customer  accounted  for
approximately 22% and 19% of our net sales, respectively. We expect that we will continue to depend for the foreseeable future upon a small
number of customers for a significant portion of our sales. Our agreements with these customers generally do not require them to purchase any
specified amount of ethanol or dollar amount of sales or to make any purchases whatsoever. Therefore, in any future period, our sales generated
from  these  customers,  individually  or  in  the  aggregate,  may  not  equal  or  exceed  historical  levels.  If  sales  to  any  of  these  customers  cease  or
decline,  we  may  be  unable  to  replace  these  sales  with  sales  to  either  existing  or  new  customers  in  a  timely  manner,  or  at  all.  A  cessation  or
reduction of sales to one or more of these customers could cause a significant decline in our overall sales and profitability.

18

 
 
 
 
 
 
 
 
 
Our lack of long-term ethanol orders and commitments by our customers could lead to a rapid decline in our sales and profitability.

We  cannot  rely  on  long-term  ethanol  orders  or  commitments  by  our  customers  for  protection  from  the  negative  financial  effects  of  a
decline  in  the  demand  for  ethanol  or  a  decline  in  the  demand  for  our  marketing  services.  The  limited  certainty  of  ethanol  orders  can  make  it
difficult for us to forecast our sales and allocate our resources in a manner consistent with our actual sales. Moreover, our expense levels are
based in part on our expectations of future sales and, if our expectations regarding future sales are inaccurate, we may be unable to reduce costs in
a timely manner to adjust for sales shortfalls. Furthermore, because we depend on a small number of customers for a significant portion of our
sales, the magnitude of the ramifications of these risks is greater than if our sales were less concentrated. As a result of our lack of long-term
ethanol orders and commitments, we may experience a rapid decline in our sales and profitability.

We recognized impairment charges in 2009 and may recognize additional impairment charges in the future.

For  2009,  we  recognized  asset  impairment  charges  in  the  aggregate  amount  of  $252.4  million.  These  impairment  charges  primarily
related to our previously wholly-owned ethanol facilities. We performed our forecast of expected future cash flows of these facilities over their
estimated useful lives. The forecasts of expected future cash flows are heavily dependent upon management’s estimates and probability analysis
of various scenarios including market prices for ethanol, our primary product, and corn, our primary production input. Both ethanol and corn
costs  have  fluctuated  significantly  in  the  past  year,  therefore  these  estimates  are  highly  subjective  and  are  management’s  best  estimates  at  this
time. During 2010, as a result of the sale of our 42% ownership interest in Front Range, we incurred an additional loss on the difference between
our cost basis of the investment in Front Range and the price at which we sold our investment. We may also incur additional impairments in the
future on current or future long-lived assets.

Risks Related to Ownership of our Common Stock

Our stock price is highly volatile, which could result in substantial losses for investors purchasing shares of our common stock and in
litigation against us.

The market price of our common stock has fluctuated significantly in the past and may continue to fluctuate significantly in the future.
The market price of our common stock may continue to fluctuate in response to one or more of the following factors, many of which are beyond
our control:

·

·
·
·
·
·
·
·
·
·
·
·
·
·

our ability to maintain contracts that are critical to our operations, including the asset management agreement with the Plant
Owners  that  provide  us  with  the  ability  to  operate  the  Pacific  Ethanol  Plants  and  the  marketing  agreements  with  the  Plant
Owners whose facilities are operational that provide us with the ability to market all ethanol and co-products produced by the
Pacific Ethanol Plants;
fluctuations in the market price of ethanol and its co-products;
the cost of key inputs to the production of ethanol, including corn and natural gas;
the volume and timing of the receipt of orders for ethanol from major customers;
competitive pricing pressures;
our ability to produce, sell and deliver ethanol on a cost-effective and timely basis;
the introduction and announcement of one or more new alternatives to ethanol by our competitors;
changes in market valuations of similar companies;
stock market price and volume fluctuations generally;
regulatory developments or increased enforcement;
fluctuations in our quarterly or annual operating results;
additions or departures of key personnel;
our inability to obtain financing; and
our financing activities and future sales of our common stock or other securities.

19

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Furthermore, we believe that the economic conditions in California and other Western states, as well as the United States as a whole,
could  have  a  negative  impact  on  our  results  of  operations.  Demand  for  ethanol  could  also  be  adversely  affected  by  a  slow-down  in  overall
demand  for  oxygenate  and  gasoline  additive  products.  The  levels  of  our  ethanol  production  and  purchases  for  resale  will  be  based  upon
forecasted demand. Accordingly, any inaccuracy in forecasting anticipated revenues and expenses could adversely affect our business. The failure
to  receive  anticipated  orders  or  to  complete  delivery  in  any  quarterly  period  could  adversely  affect  our  results  of  operations  for  that  period.
Quarterly results are not necessarily indicative of future performance for any particular period, and we may not experience revenue growth or
profitability on a quarterly or an annual basis.

The price at which you purchase shares of our common stock may not be indicative of the price that will prevail in the trading market.
You may be unable to sell your shares of common stock at or above your purchase price, which may result in substantial losses to you and which
may  include  the  complete  loss  of  your  investment.  In  the  past,  securities  class  action  litigation  has  often  been  brought  against  a  company
following  periods  of  high  stock  price  volatility.  We  may  be  the  target  of  similar  litigation  in  the  future.  Securities  litigation  could  result  in
substantial costs and divert management’s attention and our resources away from our business.

Any of the risks described above could have a material adverse effect on our results of operations, the price of our common stock, or

both.

As a result of our issuance of shares of Series B Preferred Stock, our common stockholders may experience numerous negative effects
and most of the rights of our common stockholders will be subordinate to the rights of the holders of our Series B Preferred Stock.

As a result of our issuance of shares of Series B Cumulative Convertible Preferred Stock, or Series B Preferred Stock, our common
stockholders  may  experience  numerous  negative  effects,  including  dilution  from  any  dividends  paid  in  preferred  stock  and  antidilution
adjustments. In addition, rights in favor of the holders of our Series B Preferred Stock include seniority in liquidation and dividend preferences;
substantial voting rights; and numerous protective provisions. Also, our outstanding Series B Preferred Stock could have the effect of delaying,
deferring and discouraging another party from acquiring control of Pacific Ethanol.

Item 1B.

Unresolved Staff Comments.

None.

Item 2.

Properties.

Our corporate headquarters, located in Sacramento, California, consists of a 10,000 square foot office under a lease expiring in 2013.
The Pacific Ethanol Plants are located in: Madera, California, at a 137 acre facility; Boardman, Oregon, at a 25 acre facility; Burley, Idaho, at a
160 acre facility; and Stockton, California, at a 30 acre facility. The properties in Madera, California and Burley, Idaho are owned by the Plant
Owners. The properties in Boardman, Oregon and Stockton, California are leased by the Plant Owners under leases expiring in 2026 and 2022,
respectively. See “Business—Production Facilities.”

20

 
 
 
 
 
 
 
 
 
 
 
Item 3.

Legal Proceedings.

We are subject to legal proceedings, claims and litigation arising in the ordinary course of business, including those noted below. We did

not record any accrual for contingent liabilities associated with the legal proceedings described below.

On December 22, 2005, Barry J. Spiegel, a former shareholder and director of Accessity Corp., a New York corporation, or Accessity,
filed a complaint in the Circuit Court of the 17th Judicial District in and for Broward County, Florida (Case No. 05018512), or the State Court
Action,  against  Barry  Siegel,  Philip  Kart,  Kenneth  Friedman  and  Bruce  Udell,  or  collectively,  the  Individual  Defendants.  Messrs.  Udell  and
Friedman  are  former  directors  of  Accessity  and  Pacific  Ethanol.  Mr.  Kart  is  a  former  executive  officer  of  Accessity  and  Pacific  Ethanol.  Mr.
Siegel is a former director and former executive officer of Accessity and Pacific Ethanol.

The State Court Action relates to a March 2005 transaction, or Share Exchange Transaction, with the shareholders of Pacific Ethanol,
Inc.,  a  California  corporation,  or  PEI  California,  and  the  holders  of  the  membership  interests  of  each  of  Kinergy  and  ReEnergy,  LLC,  or
ReEnergy.  Upon  completion  of  the  Share  Exchange  Transaction,  we  acquired  all  of  the  issued  and  outstanding  shares  of  capital  stock  of  PEI
California and all of the outstanding membership interests of each of Kinergy and ReEnergy. Immediately prior to the consummation of the Share
Exchange Transaction, our predecessor, Accessity, Inc., reincorporated in the State of Delaware under the name Pacific Ethanol, Inc. The State
Court  Action  purported  to  state  the  following  five  counts  against  the  Individual  Defendants:  (i)  breach  of  fiduciary  duty,  (ii)  violation  of  the
Florida Deceptive and Unfair Trade Practices Act, (iii) conspiracy to defraud, (iv) fraud, and (v) violation of Florida’s Securities and Investor
Protection  Act.  Mr.  Spiegel  based  his  claims  on  allegations  that  the  actions  of  the  Individual  Defendants  in  approving  the  Share  Exchange
Transaction caused the value of his Accessity common stock to diminish and sought approximately $22.0 million in damages. On March 8, 2006,
the Individual Defendants filed a motion to dismiss the State Court Action. Mr. Spiegel filed his response in opposition on May 30, 2006. The
court granted the motion to dismiss by Order dated December 1, 2006, on the grounds that, among other things, Mr. Spiegel failed to bring his
claims as a derivative action.

On February 9, 2007, Mr. Spiegel filed an amended complaint which purported to state the following five counts: (i) breach of fiduciary
duty, (ii) fraudulent inducement, (iii) violation of Florida’s Securities and Investor Protection Act, (iv) fraudulent concealment, and (v) breach of
fiduciary duty of disclosure. The amended complaint included Pacific Ethanol as a defendant. On March 30, 2007, Pacific Ethanol filed a motion
to  dismiss  the  amended  complaint.  Before  the  court  could  decide  that  motion,  on  June  4,  2007,  Mr.  Spiegel  amended  his  complaint,  which
purported  to  state  two  counts:  (a)  breach  of  fiduciary  duty,  and  (b)  fraudulent  inducement.  The  first  count  was  alleged  against  the  Individual
Defendants  and  the  second  count  was  alleged  against  the  Individual  Defendants  and  Pacific  Ethanol.  The  amended  complaint  was,  however,
voluntarily dismissed on August 27, 2007, by Mr. Spiegel as to Pacific Ethanol.

21

 
 
 
 
 
 
 
Mr.  Spiegel  sought  and  obtained  leave  to  file  another  amended  complaint  on  June  25,  2009,  which  renewed  his  case  against  Pacific
Ethanol, and named three additional individual defendants, and asserted the following three counts: (i) breach of fiduciary duty, (ii) fraudulent
inducement, and (iii) aiding and abetting breach of fiduciary duty. The first two counts were alleged solely against the Individual Defendants.
With respect to the third count, Mr. Spiegel named Pacific Ethanol California, Inc. (formerly known as Pacific Ethanol, Inc.), as well as William
L. Jones, Neil M. Koehler and Ryan W. Turner. Mr. Jones is a director of Pacific Ethanol. Mr. Turner is a former director and officer of Pacific
Ethanol.  Mr.  Koehler  is  a  director  and  officer  of  Pacific  Ethanol.  Pacific  Ethanol  and  the  Individual  Defendants  filed  a  motion  to  dismiss  the
count  against  them,  and  the  court  granted  the  motion.  Plaintiff  then  filed  another  amended  complaint,  and  all  defendants  once  again  moved  to
dismiss.  The  motion  was  heard  on  February  17,  2010,  and  the  court,  on  March  22,  2010,  denied  the  motion  requiring  Pacific  Ethanol  and
Messrs. Jones, Koehler and Turner to answer the complaint and respond to discovery requests.

On December 28, 2006, Barry J. Spiegel, filed a complaint in the United States District Court, Southern District of Florida (Case No.
06-61848), or the Federal Court Action, against the Individual Defendants and Pacific Ethanol. The Federal Court Action related to the Share
Exchange Transaction and purported to state the following three counts: (i) violations of Section 14(a) of the Securities Exchange Act of 1934, as
amended,  or  Exchange  Act,  and  Rule  14a-9  promulgated  thereunder,  (ii)  violations  of  Section  10(b)  of  the  Exchange  Act  and  Rule  10b-5
promulgated  thereunder,  and  (iii)  violation  of  Section  20(A)  of  the  Exchange  Act.  The  first  two  counts  were  alleged  against  the  Individual
Defendants and Pacific Ethanol and the third count was alleged solely against the Individual Defendants. Mr. Spiegel based his claims on, among
other  things,  allegations  that  the  actions  of  the  Individual  Defendants  and  Pacific  Ethanol  in  connection  with  the  Share  Exchange  Transaction
resulted in a share exchange ratio that was unfair and resulted in the preparation of a proxy statement seeking shareholder approval of the Share
Exchange Transaction that contained material misrepresentations and omissions. Mr. Spiegel sought in excess of $15.0 million in damages.

Mr. Spiegel amended the Federal Court Action on March 5, 2007, and Pacific Ethanol and the Individual Defendants filed a Motion to
Dismiss the amended pleading on April 23, 2007. Mr. Spiegel sought to stay his own federal case, but the Motion was denied on July 17, 2007.
The court required Mr. Spiegel to respond to our Motion to Dismiss. On January 15, 2008, the court rendered an Order dismissing the claims
under Section 14(a) of the Exchange Act on the basis that they were time barred and that more facts were needed for the claims under Section
10(b) of the Exchange Act. The court, however, stayed the entire case pending resolution of the State Court Action.

On November 9, 2011, the parties entered into a confidential settlement agreement to settle all matters relating to the State Court Action
and the Federal Court Action. The confidential settlement agreement became effective on November 21, 2011 whereupon the State Court Action
and the Federal Court Action were dismissed with prejudice.

Item 4.

Mine Safety Disclosures.

Not applicable.

22

 
 
 
 
 
 
 
 
PART II

Item 5.

Market For Registrant’s Common Equity, Related Stockholder Matters and Issuer Purchases of Equity Securities.

Market Information

Our common stock has traded on The NASDAQ Capital Market under the symbol “PEIX” since May 3, 2010. Between October 10,
2005 and May 3, 2010, our common stock traded on The NASDAQ Global Market (formerly, The NASDAQ National Market). On June 8,
2011, we effected a one-for-seven reverse split of our common stock. The table below shows, for each fiscal quarter indicated, the high and low
sales prices for shares of our common stock. The prices for periods prior June 8, 2011, have been retroactively restated as if the reverse split had
occurred  on  January  1,  2010.  The  prices  shown  reflect  inter-dealer  prices,  without  retail  mark-up,  mark-down  or  commission,  and  may  not
necessarily represent actual transactions.

Year Ended December 31, 2011:

First Quarter (January 1 – March 31)
Second Quarter (April 1 – June 30)
Third Quarter (July 1 – September 30)
Fourth Quarter (October 1 – December 31)

Year Ended December 31, 2010:

First Quarter
Second Quarter
Third Quarter
Fourth Quarter

Security Holders

Price Range

High

Low

  $
  $
  $
  $

  $
  $
  $
  $

7.98    $
4.55    $
1.31    $
1.85    $

19.25    $
11.20    $
8.75    $
7.98    $

4.20 
1.08 
0.25 
0.25 

4.97 
3.15 
2.59 
4.06 

As  of  March  7,  2012,  we  had  86,803,933  shares  of  common  stock  outstanding  held  of  record  by  approximately  420  stockholders.
These  holders  of  record  include  depositories  that  hold  shares  of  stock  for  brokerage  firms  which,  in  turn,  hold  shares  of  stock  for  numerous
beneficial owners. On March 7, 2012, the closing sales price of our common stock on The NASDAQ Capital Market was $1.08 per share.

Dividend Policy

We  have  never  paid  cash  dividends  on  our  common  stock  and  do  not  intend  to  pay  cash  dividends  on  our  common  stock  in  the

foreseeable future. We anticipate that we will retain any earnings for use in the continued development of our business.

23

 
 
 
 
 
 
 
 
 
 
   
 
   
     
 
 
   
     
 
 
   
      
  
   
      
  
 
   
      
  
 
 
 
 
 
Our current and future debt financing arrangements may limit or prevent cash distributions from our subsidiaries to us, depending upon
the achievement of certain financial and other operating conditions and our ability to properly service our debt, thereby limiting or preventing us
from  paying  cash  dividends.  In  addition,  the  holders  of  our  outstanding  Series  B  Preferred  Stock  are  entitled  to  dividends  of  7%  per  annum,
payable quarterly, none of which have been paid for the years ended December 31, 2011, 2010 and 2009, or thereafter through the filing of this
report. Accumulated and unpaid dividends in respect of our preferred stock must be paid prior to the payment of any dividends to our common
stockholders.

Recent Sales of Unregistered Securities

Not applicable.

Purchases of Equity Securities by the Issuer and Affiliated Purchasers

We  granted  to  certain  employees  and  directors  shares  of  restricted  stock  under  our  2006  Stock  Incentive  Plan  pursuant  to  Restricted

Stock Agreements dated and effective as of their respective grant dates by and between us and those employees and directors.

We  were  obligated  to  withhold  minimum  withholding  tax  amounts  with  respect  to  vested  shares  of  restricted  stock  and  upon  future
vesting of shares of restricted stock granted to our employees. Each employee was entitled to pay the minimum withholding tax amounts to us in
cash  or  to  elect  to  have  us  withhold  a  vested  amount  of  shares  of  restricted  stock  having  a  value  equivalent  to  our  minimum  withholding  tax
requirements,  thereby  reducing  the  number  of  shares  of  vested  restricted  stock  that  the  employee  ultimately  receives.  If  an  employee  failed  to
timely make such election, we automatically withheld the necessary shares of vested restricted stock.

In 2011, in connection with satisfying our withholding requirements, we withheld the following number of shares of our common stock
and remitted cash payments to cover the minimum withholding tax amounts, thereby effectively repurchasing from the employees such number of
shares of our common stock at the following deemed purchase prices:

Month
April
July
October

Total

Item 6.

Selected Financial Data.

Not applicable.

Number of
Shares
Withheld

Deemed
Purchase

Price Per Share    

Aggregate
Purchase Price  
2,079 
939 
375 
3,393 

4.34    $
1.08    $
0.28    $
     $

479    $
869    $
1,338    $
2,686     

24

 
 
 
 
 
 
 
 
 
 
 
   
   
   
   
   
 
 
 
 
 
Item 7.

Management’s Discussion and Analysis of Financial Condition and Results of Operations.

The  following  discussion  and  analysis  of  our  financial  condition  and  results  of  operations  should  be  read  in  conjunction  with  our
consolidated  financial  statements  and  notes  to  consolidated  financial  statements  included  elsewhere  in  this  report.  This  discussion  contains
forward-looking statements, reflecting our plans and objectives that involve risks and uncertainties. Actual results and the timing of events may
differ materially from those contained in these forward-looking statements due to a number of factors, including those discussed in the section
entitled “Risk Factors” and elsewhere in this report.

Overview

We are the leading marketer and producer of low-carbon renewable fuels in the Western United States.

We  market  all  the  ethanol  produced  by  the  Pacific  Ethanol  Plants,  all  the  ethanol  produced  by  three  other  ethanol  producers  in  the
Western United States and ethanol purchased from other third-party suppliers throughout the United States. We also market ethanol co-products,
including  WDG,  for  the  Pacific  Ethanol  Plants.  We  have  extensive  customer  relationships  throughout  the  Western  United  States.  Our  ethanol
customers  are  integrated  oil  companies  and  gasoline  marketers  who  blend  ethanol  into  gasoline.  We  arrange  for  transportation,  storage  and
delivery of ethanol purchased by our customers through our agreements with third-party service providers in the Western United States, primarily
in California, Arizona, Nevada, Utah, Oregon, Colorado, Idaho and Washington. Our WDG customers are dairies and feedlots located near the
Pacific Ethanol Plants.

We  have  extensive  supplier  relationships  throughout  the  Western  and  Midwestern  United  States.  In  some  cases,  we  have  marketing

agreements with suppliers to market all of the output of their facilities.

We hold a 34% ownership interest in New PE Holdco which indirectly owns the Pacific Ethanol Plants through its ownership of the
Plant Owners. We operate and maintain the Pacific Ethanol Plants under the terms of an asset management agreement with New PE Holdco and
the Plant Owners. We also market ethanol and WDG produced by the Pacific Ethanol Plants under the terms of separate marketing agreements
with the Plant Owners whose facilities are operational. In addition, we provide operations, maintenance and accounting services for a 250,000
gallon per year cellulosic integrated biorefinery owned by ZeaChem Inc. in Boardman, Oregon, which is adjacent to the Pacific Ethanol Columbia
plant.

The Pacific Ethanol Plants are comprised of the four facilities described immediately below, three of which are currently operational.

When market conditions permit, and with approval of New PE Holdco, we intend to resume operations at the Madera, California facility.

Facility Name
Magic Valley
Columbia
Stockton
Madera

Facility Location
Burley, ID
Boardman, OR
Stockton, CA
Madera, CA

Estimated Annual Capacity
(gallons)
60,000,000
40,000,000
60,000,000
40,000,000

Current Operating Status
Operating
Operating
Operating
Idled

25

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
We earn fees as follows under our asset management and other agreements with New PE Holdco and the Plant Owners:

·

ethanol  marketing  fees  of  approximately  1%  of  the  net  sales  price,  but  not  less  than  $0.015  per  gallon  and  not  more  than
$0.0225 per gallon;
corn procurement and handling fees of $0.045 per bushel;

·
· WDG fees of 5% of the third-party purchase price, but not less than $2.00 per ton and not more than $3.50 per ton; and
·

asset management fees of $75,000 per month for each operating facility and $40,000 per month for each idled facility.

We  intend  to  maintain  and  advance  our  position  as  the  leading  marketer  and  producer  of  low-carbon  renewable  fuels  in  the  Western
United States, in part by expanding our relationships with customers and third-party ethanol producers to market higher volumes of ethanol and
by  expanding  the  market  for  ethanol  by  continuing  to  work  with  state  governments  to  encourage  the  adoption  of  policies  and  standards  that
promote ethanol as a fuel additive and transportation fuel. Further, we may seek to provide management services for other third-party ethanol
production facilities in the Western United States.

Financial Performance Summary

Consolidation

We consolidate New PE Holdco’s financial results due to the nature of our ownership in and control over New PE Holdco. However,
since we do not wholly-own New PE Holdco, we must adjust our consolidated net income (loss) for the income (loss) attributed to New PE
Holdco’s other owners. This adjustment results in net income (loss) attributed to Pacific Ethanol, Inc. See “—Results of Operations-Accounting
for the Results of New PE Holdco” below.

Summary

Our consolidated net sales increased by 174%, or $572.9 million, to $901.2 million for 2011 from $328.3 million for 2010. Our net
income attributed to Pacific Ethanol, Inc. decreased by $70.8 million to $3.1 million for 2011 from $73.9 million for 2010, the latter of which
included a $119.4 million gain related to the Plant Owners’ exit from bankruptcy in 2010.

Factors that contributed to our results of operations for 2011 include:

·

Net sales. The increase in our net sales for 2011 as compared to 2010 was primarily due to the following combination of factors:

o Higher  sales  volumes.  Total  volume  of  ethanol  sold  increased  by  56%  to  424.1  million  gallons  for  2011  from  271.6
million gallons for 2010. This increase in sales volume is due to an increase in both production and third party gallons
sold. In 2011, three Pacific Ethanol Plants were operating for the full year, whereas in 2010, only two Pacific Ethanol
Plants were operating most of the year.

o Higher ethanol prices. Our average sales price of ethanol increased 42% to $2.79 per gallon for 2011 as compared to

$1.96 per gallon for 2010.

o Consolidation of New PE Holdco. In 2011, we consolidated the results of New PE Holdco for the entire year, whereas in
2010, we did not consolidate New PE Holdco’s results for the three months ended September 30, 2010. For this period
we included only our net marketing fees associated with sales volumes from the Pacific Ethanol Plants. As a result, our
net sales were lower by $55.6 million for 2010.

26

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
· Gross margin. Our gross margin improved to 2.2% for 2011 from negative 0.2% for 2010. The improvement in gross margin was

primarily the result of improved operating margins at the Pacific Ethanol Plants.

·

·

·

Selling, general and administrative expenses. Our selling, general and administrative expenses, or SG&A, increased by $2.4 million
to $15.4 million for 2011, as compared to $13.0 million for 2010, primarily as a result of increases in payroll and benefits, taxes and
permits,  amortization  of  intangibles,  rent  expense  and  professional  fees,  which  were  partially  offset  by  decreases  in  noncash
compensation expense.

Fair value adjustments on convertible notes and warrants. We issued convertible notes and warrants in 2010 for $35.0 million in
cash. In addition, we issued warrants in December 2011. These instruments were recorded at fair value, with quarterly adjustments
for their fair value, resulting in a charge to net income of $7.6 million for 2011 as compared to a charge of $11.7 million for 2010.

Interest expense. Our interest expense increased by $8.0 million to $14.8 million for 2011 from $6.8 million for 2010. This increase
is primarily due to increased average debt balances related to our convertible notes and line of credit facilities.

· Other income (expense). Our other income (expense) decreased by $1.5 million to an expense of $0.7 million for 2011 from income
of $0.8 million for 2010. This decrease is primarily due to a gain of $1.6 million associated with our purchase of a 20% ownership
interest in New PE Holdco in 2010.

· Gain from bankruptcy exit. On June 29, 2010, the Plant Owners exited from bankruptcy, resulting in the removal of $119.4 million

in net liabilities from our balance sheet, which was recorded as a gain for 2010.

Sales and Margins

We generate sales by marketing all the ethanol produced by the Pacific Ethanol Plants, all the ethanol produced by three other ethanol
producers  in  the  Western  United  States  and  ethanol  purchased  from  other  third-party  suppliers  throughout  the  United  States.  We  also  market
ethanol co-products, including WDG, for the Pacific Ethanol Plants.

Our profitability is highly dependent on various commodity prices, including the market prices of ethanol, corn and natural gas.

Average ethanol sales prices increased in 2011 as compared to 2010. The average price of ethanol, as reported by the Chicago Board of
Trade, or CBOT, increased by 42% to $2.58 for 2011 from $1.82 for 2010. However, over a period of four weeks at the end of 2011, the market
price of ethanol declined by approximately 28%. The increase in the price of ethanol during 2011 was primarily due to an increase in crude oil
prices. The significant drop in the price of ethanol at the end of 2011 was due to a substantial drop in demand for gasoline, of which ethanol is a
primary blend stock component.

Average  corn  prices  also  increased  in  2011  as  compared  to  2010.  Specifically,  the  average  price  of  corn,  as  reported  by  the  CBOT,

increased by 58% to $6.80 for 2011 from $4.30 for 2010.

27

 
 
 
 
 
 
  
 
 
 
  
 
 
 
  
 
 
 
  
 
 
 
  
 
 
 
 
 
 
We have three principal methods of selling ethanol: as a merchant, as a producer and as an agent. See “—Critical Accounting Policies—

Revenue Recognition” below.

When acting as a merchant or as a producer, we generally enter into sales contracts to ship ethanol to a customer’s desired location. We
support  these  sales  contracts  through  purchase  contracts  with  several  third-party  suppliers  or  through  our  own  production.  We  manage  the
necessary logistics to deliver ethanol to our customers either directly from a third-party supplier or from our inventory via truck or rail. Our sales
as a merchant or as a producer expose us to significant price risks resulting from potential fluctuations in the market price of ethanol and corn.
Our exposure varies depending on the magnitude of our sales and purchase commitments compared to the magnitude of our existing inventory,
as  well  as  the  pricing  terms—such  as  market  index  or  fixed  pricing—of  our  contracts.  We  seek  to  mitigate  our  exposure  to  price  risks  by
implementing appropriate risk management strategies.

When acting as an agent for third-party suppliers, we conduct back-to-back purchases and sales in which we match ethanol purchase
and sale contracts of like quantities and delivery periods. When acting in this capacity, we receive a predetermined service fee and have little or no
exposure to price risks resulting from potential fluctuations in the market price of ethanol. For these sales, we record the marketing fee as net
sales.

We believe that our gross profit margins depend primarily on five key factors:

·

·

·

·

·

the market price of ethanol, which we believe will be impacted by the degree of competition in the ethanol market, the price of
gasoline and related petroleum products, and government regulation, including government mandates;

the market price of key production input commodities, including corn and natural gas;

the market price of WDG;

our ability to anticipate trends in the market price of ethanol, WDG, and key input commodities and implement appropriate
risk management and opportunistic strategies; and

the proportion of our sales of ethanol produced at the Pacific Ethanol Plants to our sales of ethanol produced by unrelated
third-parties.

We seek to optimize our gross profit margins by anticipating the factors above and, when resources are available, implementing hedging
transactions and taking other actions designed to limit risk and address these factors. For example, we may seek to decrease inventory levels in
anticipation of declining ethanol prices and increase inventory levels in anticipation of increasing ethanol prices. We may also seek to alter our
proportion or timing, or both, of purchase and sales commitments.

Our limited resources to act upon the anticipated factors described above and/or our inability to anticipate these factors or their relative
importance, and adverse movements in the factors themselves, could result in declining or even negative gross profit margins over certain periods
of  time.  Our  ability  to  anticipate  these  factors  or  favorable  movements  in  these  factors  may  enable  us  to  generate  above-average  gross  profit
margins. However, given the difficulty associated with successfully forecasting any of these factors, we are unable to estimate our future gross
profit margins.

28

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Results of Operations

Accounting for the Results of New PE Holdco

Our consolidated financial statements include the financial statements of New PE Holdco, which in turn include the financial statements
of the Plant Owners, for all periods except for the three months ended September 30, 2010. On June 29, 2010, the Plant Owners emerged from
bankruptcy, and the ownership of the Plant Owners was transferred to New PE Holdco. Accordingly, for the three months ended September 30,
2010, we did not consolidate New PE  Holdco’s or the Plant Owners’ financial results as we had no ownership interest in the Plant Owners or
New PE Holdco during the period and we did not have the obligation to absorb losses or a right to receive benefits from New PE Holdco that
could potentially be significant to New PE Holdco. Also, under the Plan, we removed the Plant Owners’ assets of $175.0 million and liabilities
of $294.4 million from our balance sheet, resulting in a net gain of $119.4 million for 2010. On October 6, 2010, we purchased a 20% ownership
interest in New PE Holdco, which gave us the single largest equity position in New PE Holdco. Based on our ownership interest as well as our
asset  management  and  marketing  agreements  with  New  PE  Holdco,  we  determined  that,  beginning  on  October  6,  2010,  we  were  the  primary
beneficiary of New PE Holdco, and as such, we resumed consolidating New PE Holdco’s financial results with our financial results beginning in
the fourth quarter of 2010. Since then, we have further increased our ownership interest in New PE Holdco to 34%.

Selected Financial Information

The following selected financial information should be read in conjunction with our consolidated financial statements and notes to our
consolidated  financial  statements  included  elsewhere  in  this  report,  and  the  other  sections  of  “Management’s  Discussion  and  Analysis  of
Financial Condition and Results of Operations” contained in this report.

Certain performance metrics that we believe are important indicators of our results of operations include:

Production gallons sold (in millions)
Third party gallons sold (in millions)
    Total gallons sold (in millions)
Average sales price per gallon
Corn cost per bushel—CBOT equivalent(1)
Co-product revenues as % of delivered cost of corn(2)
Average CBOT ethanol price per gallon(3)
Average CBOT corn price per bushel(3)

Years Ended December 31,
2010

2011

      Percentage  
      Variance

150.8     
273.3     
424.1     
2.79    $
6.76    $
23.6%     
2.58    $
6.80    $

69.4     
202.2     
271.6     
1.96     
4.33     
21.3%     
1.82     
4.30     

117.3%  
35.2%  
56.1%  
42.3%  
56.1%  
10.8%  
41.8%  
58.1%  

  $
  $

  $
  $

  (1) We exclude transportation—or “basis”—costs in our corn costs to calculate a CBOT equivalent in order to more appropriately compare

our corn costs to average CBOT corn prices.

  (2) Co-product  revenues  as  percentage  of  delivered  cost  of  corn  shows  our  yield  based  on  sales  of  WDG  generated  from  ethanol  we

produced.

  (3) Prices for 2010 exclude the three months ended September 30, 2010, as the activities of the Pacific Ethanol Plants were not consolidated

in our financial results.

29

 
 
 
 
 
 
 
 
 
 
 
 
   
     
 
 
   
   
   
   
 
 
Year Ended December 31, 2011 Compared to the Year Ended December 31, 2010

Years Ended
December 31,

2011

2010
(dollars in thousands)

Dollar
Variance
Favorable
(Unfavorable)

Percentage
Variance
Favorable
(Unfavorable)

Results as a Percentage
of Net Sales for the
Years Ended
December 31,

2011

2010

  $

901,188    $
881,789     
19,399     

328,332    $
329,143     
(811)    

572,856     
(552,646)    
20,210     

174.5%     
(167.9%)    
*     

100.0%     
97.8%     
2.2%     

100.0% 
100.2% 
(0.2%)

Net sales
Cost of goods sold
Gross profit (loss)
Selling, general and
administrative
expenses

Income (loss) from

operations

Fair value adjustments

on convertible
notes   and warrants
Loss on investment in

Front Range

Loss on extinguishments

of debt

Interest expense
Other income (expense),

net

Loss before

reorganization costs,
gain from bankruptcy
exit, provision for
income taxes and
noncontrolling interest
in variable interest
entities

Reorganization costs
Gain from bankruptcy

exit

Provision for income

taxes

Consolidated net income

(loss)

Net loss attributed to

noncontrolling interest
in variable interest
entities

Net income attributed to
Pacific Ethanol, Inc.

  $

Preferred stock
dividends

Income available to

15,427     

12,956     

(2,471)    

(19.1%)    

(1.7%)    

3,972     

(13,767)    

17,739     

128.9%     

0.5%     

7,559     

(11,736)    

19,295     

—     

(12,146)    

12,146     

—     
(14,813)    

(2,159)    
(6,804)    

2,159     
(8,009)    

164.4%     

100.0%     

100.0%     
(117.7%)    

0.8%     

—     

—     
(1.6%)    

(741)    

840     

(1,581)    

(188.2%)    

(0.1%)    

(4,023)    
—     

(45,772)    
(4,153)    

41,749     
4,153     

91.2%     
100.0%     

—     

—     

119,408     

(119,408)    

(100.0%)    

—     

—     

—     

(0.4%)    
—     

—     

—     

(4,023)    

69,483     

(73,506)    

(105.8%)    

(0.4%)    

7,097     

4,409     

2,688     

61.0%     

3,074    $

73,892    $

(70,818)    

(95.8%)    

0.7%     

0.3%     

(1,265)    

(2,847)    

1,582     

55.6%     

(0.1%)    

(3.9%)

(4.1%)

(3.6%)

(3.7%)

(0.7%)
(2.1%)

0.3% 

(13.9%)
(1.3%)

36.4% 

— 

21.2% 

1.3% 

22.5% 

(0.9%)

21.6% 

common stockholders   $

1,809    $

71,045    $

(69,236)    

(97.5%)    

0.2%     

*      Not meaningful.

Net Sales

The increase in our net sales for 2011 as compared to 2010 was primarily due to an increase in total gallons sold and an increase in our

average sales price per gallon.

Total volume of production gallons sold increased 117%, or 81.4 million gallons, to 150.8 million gallons for 2011 as compared to 69.4
million gallons for 2010. The increase in production gallons  sold  is  primarily  due  to  our  consolidation  of  the  financial  results  of  three  Pacific
Ethanol Plants during all of 2011, whereas in 2010, we deconsolidated their results for the three months ended September 30, 2010. Third-party
gallons sold also increased by 35%, or 71.1 million gallons, to 273.3 million gallons for 2011 as compared to 202.2 million gallons for 2010. The
increase in third-party gallons sold is primarily due to increased sales under our third-party ethanol marketing arrangements. Of the total amount
of third-party gallons sold for the three months ended September 30, 2010, 24.1 million gallons were attributable to the Pacific Ethanol Plants,
which partially offset the increase in net sales by $55.6 million for 2010.

30

 
 
 
 
 
 
   
   
   
 
 
 
   
   
   
 
 
 
   
   
   
   
   
 
 
 
     
     
     
 
 
   
      
      
      
      
      
  
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
 
 
 
 
 
Our  average  sales  price  per  gallon  increased  42%  to  $2.79  for  2011  from  $1.96  for  2010.  This  increase  in  average  sales  price  per

gallon is consistent with the average CBOT price per gallon, which also increased 42% to $2.58 for 2011 from $1.82 for 2010.

Cost of Goods Sold and Gross Profit (Loss)

Our gross profit (loss) improved to $19.4 million for 2011 from a gross loss of $0.8 million for 2010 primarily due to higher sales and
improved commodity margins, predominately related to the spread between ethanol prices and corn and energy costs. Our gross margin increased
to 2.2% for 2011 as compared to negative 0.2% for 2010. Although corn, the single largest component of the production cost of our ethanol,
increased by 58% to $6.80 per bushel, the contribution of a third Pacific Ethanol Plant in operation helped improve our gross profit.

In addition, we were able to offset approximately $1.5 million and $0.5 million for 2011 and 2010, respectively, of our production costs
due  to  elevated  corn  prices  with  proceeds  from  the  CEPIP  through  the  Pacific  Ethanol  Plants  located  in  California,  which  were  recorded  as
reductions to cost of goods sold. For any month in which a payment is made by the CEPIP, we may be required to reimburse the funds within
the subsequent five years from each payment date, if corn crush spreads, measured as the difference between specified ethanol and corn index
prices, exceed $1.00 per gallon. To date, we have not been required to reimburse any amounts, and based on historical corn crush spreads, we do
not believe we will be required to make any reimbursements in the foreseeable future.

Selling, General and Administrative Expenses

Our SG&A increased by $2.4 million to $15.4 million for 2011 as compared to $13.0 million for 2010. SG&A, however, decreased as

a percentage of net sales due to higher sales volumes. The dollar increase in SG&A is primarily due to the following factors:

·

·

·

·

·

an increase in salaries and benefits of $0.5 million due to increased headcount to support our increased sales volume;

an increase in taxes and permits of $0.4 million due to the restart of the Stockton facility and other matters related to the
Pacific Ethanol Plants;

an increase in amortization of intangibles of $0.4 million due to amortization of the Pacific Ethanol tradename by New PE
Holdco;

an increase in rent expense of $0.3 million due to a full year of consolidating the results of New PE Holdco and the Pacific
Ethanol Plants; and

an increase in professional fees of $0.3 million due to administrative costs incurred by New PE Holdco.

These increases were partially offset by a decrease in noncash compensation expense of $0.2 million primarily due to a decline in the fair

value of awards occurring during the year.

Fair Value Adjustments on Convertible Notes and Warrants

We issued senior convertible notes and warrants in 2010 for $35.0 million in cash. The senior convertible notes and warrants were recorded
at fair value. We recorded a charge of $11.7 million related to the original issuance and subsequent fair value adjustments of these instruments for
2010. In 2011, we recorded gains of $7.6 million related to our quarterly fair value adjustments on these instruments.

31

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Loss on Investment in Front Range

In September 2010, we entered into an agreement to sell our entire interest in Front Range for $18.5 million in cash. The carrying value
of our interest in Front Range prior to the sale was $30.6 million. As a result, we reduced our investment in Front Range to fair value, resulting in
a charge of $12.1 million. We closed the sale of our interest in Front Range in October 2010.

Loss on Extinguishments of Debt

We  were  party  to  agreements  designed  to  satisfy  our  then  outstanding  debt  to  Lyles  United  LLC  and  Lyles  Mechanical  Co.,  or
collectively,  Lyles.  Under  these  agreements,  we  issued  shares  to  a  third  party  which  acquired  outstanding  debt  owed  to  Lyles  in  successive
tranches.  During  2010,  under  the  terms  of  these  agreements,  we  issued  an  aggregate  of  3.4  million  shares  of  common  stock,  resulting  in  an
aggregate loss of $2.2 million.

Interest Expense

Interest  expense  increased  by  $8.0  million  to  $14.8  million  for  2011  from  $6.8  million  for  2010.  The  increase  is  primarily  due  to
increased average debt balances, which includes our convertible notes and the term and line of credit facilities for New PE Holdco. In addition,
the increase is related to early voluntary conversions by the holders of our convertible notes. Upon conversion, under the terms of the convertible
notes,  “make-whole”  interest  was  paid  on  the  principal  amounts  converted  in  an  amount  that  would  have  accrued  had  the  principal  amounts
remained outstanding through maturity.

Other Income (Expense), Net

Other income (expense) decreased by $1.5 million to an expense of $0.7 million for 2011 from income of $0.8 million for 2010. The
decrease in other income (expense) is primarily due to a gain of $1.6 million associated with our acquisition of a 20% ownership interest in New
PE Holdco, as we paid for our ownership interest at a discount to the fair value of the net assets of New PE Holdco.

Reorganization Costs and Gain from Bankruptcy Exit

Under  the  Financial  Accounting  Standards  Board’s  Accounting  Standards  Codification  852, Reorganizations,  revenues,  expenses,
realized gains and losses, and provisions for losses that can be directly associated with the reorganization and restructuring of our business must
be reported separately as reorganization items in the statements of operations. Professional fees directly related to the reorganization include fees
associated with advisors to the Plant Owners, unsecured creditors, secured creditors and administrative costs in complying with reporting rules
under the Bankruptcy Code.

The Plant Owners’ reorganization costs consisted of the following (in thousands):

Professional fees
Trustee fees

December 31,

2011

2010

  $

  $

—    $
—     
—    $

4,026 
127 
4,153 

As  of  the  Effective  Date,  we  no  longer  owned  the  Plant  Owners.  As  a  result,  we  removed  the  net  liabilities  from  our  consolidated

financial statements, resulting in a net gain from bankruptcy exit of $119.4 million.

32

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
   
 
   
 
Net Loss Attributed to Noncontrolling Interest in Variable Interest Entities

Net loss attributed to noncontrolling interest in variable interest entities relates to the consolidated treatment of New PE Holdco for the
three months ended December 31, 2010 and for all of 2011, and represents the noncontrolling interest of others in New PE Holdco’s earnings.
We consolidated New PE Holdco’s financial results for the applicable periods. However, because we owned less than 100%, we reduced our net
income (loss) for the noncontrolling interest, which represents the remaining ownership interest that we do not own.

Preferred Stock Dividends

Shares of our Series B Preferred Stock are entitled to quarterly cumulative dividends payable in arrears in an amount equal to 7% per
annum of the purchase price per share of the Series B Preferred Stock. We accrued dividends of $1.3 million and $2.8 million for 2011 and 2010,
respectively, resulting in total accrued and unpaid dividends of $7.3 million in respect of our Series B Preferred Stock.

Liquidity and Capital Resources

During  2011,  we  funded  our  operations  primarily  from  cash  provided  by  operations,  borrowings  under  our  credit  facilities  and  the
remaining proceeds from the issuance and sale of our senior convertible notes and warrants and our private placement in December 2011. On
December 13, 2011, we raised net proceeds of approximately $7.4 million through the issuance of 7.6 million shares of our common stock and
warrants to purchase an aggregate of up to 5.0 million shares of our common stock at an exercise price of $1.50 per share, subject to adjustment.

We  had  working  capital  of  $57.8  million  and  $9.5  million  as  of  December  31,  2011  and  2010,  respectively.  We  had  cash  and  cash

equivalents of $8.9 million and $8.7 million as of December 31, 2011 and 2010, respectively.

Our current available capital resources consist of cash on hand and amounts available for borrowing under Kinergy’s credit facility. In
addition, New PE Holdco has a credit facility for use in the operations of the Pacific Ethanol Plants. We expect that our future available capital
resources will consist primarily of our remaining cash balances, amounts available for borrowing, if any, under Kinergy’s credit facility, cash
generated from Kinergy’s ethanol marketing business, fees paid under our asset management agreement relating to our operation of the Pacific
Ethanol  Plants,  distributions,  if  any,  in  respect  of  our  ownership  interest  in  New  PE  Holdco,  and  the  remaining  proceeds  of  any  future  debt
and/or equity financings.

We  believe  that  current  and  future  available  capital  resources,  revenues  generated  from  operations,  and  other  existing  sources  of
liquidity, including our credit facilities, will be adequate to meet our anticipated working capital and capital expenditure requirements for at least
the  next  twelve  months.  If,  however,  our  capital  requirements  or  cash  flow  vary  materially  from  our  current  projections,  if  unforeseen
circumstances occur, or if we require a significant amount of cash to fund future acquisitions, we may require additional financing. Our failure to
raise capital, if needed, could restrict our growth, or hinder our ability to compete.

33

 
 
 
 
 
 
 
 
 
 
 
Quantitative Year-End Liquidity Status

We  believe  that  the  following  amounts  provide  insight  into  our  liquidity  and  capital  resources.  The  following  selected  financial
information  should  be  read  in  conjunction  with  our  consolidated  financial  statements  and  notes  to  consolidated  financial  statements  included
elsewhere in this report, and the other sections of “Management’s Discussion and Analysis of Financial Condition and Results of Operations”
contained in this report (dollars in thousands):

Cash and cash equivalents
Current assets
Total assets of variable interest entity
Current liabilities
Property and equipment, net
Notes payable, current portion
Notes payable, noncurrent portion
Total liabilities of variable interest entity
Working capital
Working capital ratio

As of and for the
Year Ended December 31,

2011

2010

Variance

  $
  $
  $
  $
  $
  $
  $
  $
  $

8,914    $
66,748    $
173,606    $
8,982    $
159,617    $
750    $
93,689    $
76,478    $
57,766    $
7.43     

8,736     
57,324     
183,652     
47,831     
168,976     
38,108     
84,981     
74,939     
9,493     
1.20     

2.0%  
16.4%  
(5.5)% 
(81.2)% 
(5.5)% 
(98.0)% 
10.2%  
2.1%  
508.5%  
519.2%  

Change in Working Capital and Cash Flows

Working capital increased from $9.5 million at December 31, 2010 to $57.8 million at December 31, 2011 as a result of a significant

decrease in current liabilities of $38.8 million and an increase in current assets of $9.4 million.

Current liabilities decreased primarily due to the retirement of our convertible notes in the principal amount of $35.0 million. Current
assets  increased  primarily  due  to  an  increase  in  accounts  receivable  and  prepaid  inventory,  due  to  the  timing  of  sales  at  the  end  of  2011  as
compared to 2010.

Cash used in our operating activities of $4.0 million resulted primarily from our consolidated net loss of $4.0 million, a $7.6 million gain
from fair value adjustments, a $6.5 million increase in prepaid inventory, a $2.4 million decrease in accounts payable and accrued expenses and a
$2.1 million increase in accounts receivable, partially offset by $12.6 million in depreciation and amortization expense, $3.1 million in interest
paid in stock, $2.3 million in non-cash compensation and a $1.1 million decrease in inventories.

Cash used in our investing activities of $11.5 million resulted primarily from the $9.1 million purchase of additional ownership interests

in New PE Holdco and $2.4 million in additions to property and equipment.

Cash provided by our financing activities of $15.6 million resulted primarily from $10.0 million in net proceeds from our operating lines
of credit, $7.4 million in net proceeds from the issuance and sale of our common stock and warrants, partially offset by $1.2 million in principal
payments in cash on our convertible notes and $0.5 million in principal payments on related party borrowings.

34

 
 
 
 
 
 
   
 
 
 
 
 
   
   
 
   
 
 
 
 
 
 
 
Kinergy Operating Line of Credit

Kinergy maintains a credit facility in the aggregate amount of up to $30.0 million. The credit facility expires on December 31, 2013. In
May  2011,  Kinergy  and  its  lender  amended  and  increased  the  credit  facility  to  up  to  $30.0  million,  with  an  optional  accordion  feature  for  an
additional $5.0 million. Interest accrues under the credit facility at a rate equal to (i) the three-month London Interbank Offered Rate (LIBOR),
plus (ii) a specified applicable margin ranging between 3.50% and 4.50%. The credit facility’s monthly unused line fee is 0.50% of the amount by
which  the  maximum  credit  under  the  facility  exceeds  the  average  daily  principal  balance.  Kinergy  is  also  required  to  pay  customary  fees  and
expenses associated with the credit facility and issuances of letters of credit. In addition, Kinergy is responsible for a $3,000 monthly servicing
fee. Payments that may be made by Kinergy to Pacific Ethanol as reimbursement for management and other services provided by Pacific Ethanol
to Kinergy are limited to $800,000 per fiscal quarter in 2012 and $850,000 per fiscal quarter in 2013.

Kinergy was required to generate quarterly earnings before interest, taxes, depreciation and amortization, or EBITDA, of $800,000 for
the two consecutive quarterly periods ended December 31, 2011. For the fiscal quarter ending March 31, 2012, Kinergy is required to generate
quarterly EBITDA of $450,000. For the fiscal quarter ending June 30, 2012 and each fiscal quarter thereafter, Kinergy is required to generate
quarterly EBITDA of $450,000 and an EBITDA of $1,100,000 for each two consecutive quarterly period. Further, for all periods commencing
May  2011,  Kinergy  must  maintain  a  fixed  coverage  ratio  (calculated  as  a  twelve-month  rolling  EBITDA  divided  by  a  twelve-month  rolling
interest  expense)  of  at  least  2.0  under  the  credit  facility  and  is  prohibited  from  incurring  any  additional  indebtedness  (other  than  specific
intercompany indebtedness) or making any capital expenditures in excess of $100,000 absent the lender’s prior consent. Kinergy’s obligations
under the credit facility are secured by a first-priority security interest in all of its assets in favor of the lender.

The following table summarizes Kinergy’s financial covenants and actual results for the periods presented (dollars in thousands):

EBITDA Requirement – Three Months
Actual
Excess

EBITDA Requirement – Six Months
Actual
Excess

Fixed Coverage Ratio Requirement
Actual
Excess

Years Ended
December 31,

2011

2010

N/A    $
N/A    $
N/A    $

 800    $  
858    $  
58    $  

2.00     
4.26     
2.26     

250 
555 
305 

900 
2,387 
1,487 

1.10 
7.13 
6.03 

  $  
  $  
  $  

We  have  guaranteed  all  of  Kinergy’s  obligations  under  the  credit  facility.  As  of  December  31,  2011,  Kinergy  had  an  available

borrowing base under the credit facility of $26.6 million and had an outstanding balance of $20.4 million.

35

 
 
 
 
 
 
 
 
 
 
   
 
 
 
 
   
 
 
   
   
   
 
   
      
  
 
   
      
  
   
   
   
 
 
 
New PE Holdco Term Debt and Working Capital Line of Credit

On  the  Effective  Date,  approximately  $294.4  million  in  prepetition  and  post  petition  secured  indebtedness  of  the  Plant  Owners  was
restructured under a Credit Agreement entered into on June 25, 2010 among the Plant Owners, as borrowers, and various lenders. Under the
Plan, the Plant Owners’ existing prepetition and post petition secured indebtedness of approximately $294.4 million was restructured to consist
of  approximately  $50.0  million  in  three-year  term  loans  and  a  new  three-year  revolving  credit  facility  of  up  to  $35.0  million  to  fund  working
capital requirements. The term loans and credit facility mature in June 2013. We believe that the Plant Owners’ will seek to refinance these loans
prior to their stated maturity date. As of December 31, 2011, New PE Holdco had an outstanding letter of credit of approximately $0.8 million,
unused availability under the credit facility of $12.2 million and an outstanding balance of $22.0 million.

Notes Payable to Related Parties

On March 31, 2009, our Chairman of the Board and our Chief Executive Officer provided funds in an aggregate amount of $2.0 million
for general working capital purposes, in exchange for two unsecured promissory notes issued by us. Interest on the unpaid principal amounts
accrues at a rate of 8.00% per annum. All principal and accrued and unpaid interest on the promissory notes was initially due and payable in
March 2010. On October 29, 2010, we paid all accrued interest and $0.8 million in principal under these notes. On November 30, 2011, we paid
$0.5 million in principal under these notes. As of December 31, 2011, the remaining amount of $0.8 million was due and payable on the extended
maturity date of March 31, 2012. On March 7, 2012, the maturity date was further extended to March 31, 2013.

Critical Accounting Policies

Our  discussion  and  analysis  of  our  financial  condition  and  results  of  operations  is  based  upon  our  consolidated  financial  statements,
which have been prepared in accordance with accounting principles generally accepted in the United States of America. The preparation of these
financial  statements  requires  us  to  make  estimates  and  judgments  that  affect  the  reported  amounts  of  assets  and  liabilities  and  disclosure  of
contingent  assets  and  liabilities  at  the  date  of  the  financial  statements  and  the  reported  amount  of  net  sales  and  expenses  for  each  period.  The
following  represents  a  summary  of  our  critical  accounting  policies,  defined  as  those  policies  that  we  believe  are  the  most  important  to  the
portrayal  of  our  financial  condition  and  results  of  operations  and  that  require  management’s  most  difficult,  subjective  or  complex  judgments,
often as a result of the need to make estimates about the effects of matters that are inherently uncertain.

Revenue Recognition

We recognize revenue when it is realized or realizable and earned. We consider revenue realized or realizable and earned when there is
persuasive evidence of an arrangement, delivery has occurred, the sales price is fixed or determinable, and collection is reasonably assured. We
derive  revenue  primarily  from  sales  of  ethanol  and  related  co-products.  We  recognize  revenue  when  title  transfers  to  our  customers,  which  is
generally  upon  the  delivery  of  these  products  to  a  customer’s  designated  location.  These  deliveries  are  made  in  accordance  with  sales
commitments  and  related  sales  orders  entered  into  with  customers  either  verbally  or  in  written  form.  The  sales  commitments  and  related  sales
orders provide quantities, pricing and conditions of sales. In this regard, we engage in three basic types of revenue generating transactions:

·

·

·

As a producer. Sales as a producer consist of sales of our inventory produced at the Pacific Ethanol Plants.

As a merchant. Sales as a merchant consist of sales to customers through purchases from third-party suppliers in which we may
or  may  not  obtain  physical  control  of  the  ethanol  or  co-products  in  which  shipments  are  directed  from  our  suppliers  to  our
terminals or direct to our customers but for which we accept the risk of loss in the transactions.

As an agent. Sales as an agent consist of sales to customers through purchases from third-party suppliers in which the risks and
rewards  of  inventory  ownership  remain  with  third-party  suppliers  and  we  receive  a  predetermined  service  fee  under  these
transactions.

36

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Revenue  from  sales  of  third-party  ethanol  and  its  co-products  is  recorded  net  of  costs  when  we  are  acting  as  an  agent  between  a
customer and a supplier and gross when we are a principal to the transaction. Several factors are considered to determine whether we are acting as
an agent or principal, most notably whether we are the primary obligor to the customer, whether we have inventory risk and related risk of loss or
whether we add meaningful value to the supplier’s product or service. Consideration is also given to whether we have latitude in establishing the
sales price or have credit risk, or both. When we act as an agent, we record revenues on a net basis, or our predetermined fees and any associated
freight, based upon the amount of net revenues retained in excess of amounts paid to suppliers.

We record revenues based upon the gross amounts billed to our customers in transactions where we act as a producer or a merchant and
obtain title to ethanol and its co-products and therefore own the product and any related unmitigated inventory risk for the ethanol, regardless of
whether we actually obtain physical control of the product.

Consolidation of Variable Interest Entities

Effective January 1, 2010, we adopted amended guidance surrounding a company’s analysis to determine whether any of its variable
interests constitute controlling financial interests in a variable interest entity. This analysis identifies the primary beneficiary of a variable interest
entity as the enterprise that has both of the following characteristics: (i) the power to direct the activities of a variable interest entity that most
significantly impact the entity’s economic performance, and (ii) the obligation to absorb losses of the entity that could potentially be significant to
the  variable  interest  entity  or  the  right  to  receive  benefits  from  the  entity  that  could  potentially  be  significant  to  the  variable  interest  entity.
Additionally, an enterprise is required to assess whether it has an implicit financial responsibility to ensure that a variable interest entity operates
as  designed  when  determining  whether  it  has  the  power  to  direct  the  activities  of  the  variable  interest  entity  that  most  significantly  impact  the
entity’s economic performance. The amended guidance also requires ongoing reassessments of whether an enterprise is the primary beneficiary
of a variable interest entity.

Since January 1, 2010, we have identified Front Range and New PE Holdco as variable interest entities.

Prior to January 1, 2010, under the original guidance, we determined that we must consolidate Front Range, which owns a plant located
in  Windsor,  Colorado,  with  an  annual  production  capacity  of  up  to  50  million  gallons.  Under  the  amended  guidance,  we  determined  effective
January 1, 2010, that we were no longer the primary beneficiary of Front Range and, as a result, no longer consolidated Front Range’s results
and recorded our investment in Front Range under the equity method of accounting. On October 6, 2010, we sold our entire 42% ownership
interest in Front Range.

On  the  Effective  Date,  we  determined  that  New  PE  Holdco  was  a  variable  interest  entity,  however,  we  did  not  believe  we  were  its
primary beneficiary. On October 6, 2010, upon our initial purchase of a 20% interest in New PE Holdco, we determined that we were New PE
Holdco’s  primary  beneficiary  and  began  consolidating  the  results  of  New  PE  Holdco.  As  long  as  we  believe  we  are  deemed  the  primary
beneficiary of New PE Holdco, we will treat New PE Holdco as a consolidated subsidiary for financial reporting purposes.

These determinations will be reassessed for appropriateness at each future reporting period.

Warrants Carried at Fair Value

We  have  recorded  our  2010  and  2011  warrants  at  fair  value.  We  believe  the  valuation  of  the  2010  and  2011  warrants  is  a  critical
accounting  estimate  because  valuation  estimates  obtained  from  third  parties  involve  inputs  other  than  quoted  prices  to  value  the  conversion
feature. Changes in such estimates, and in particular certain of the inputs to the valuation, can be volatile from period to period and may markedly
impact the total mark-to-market on the 2010 and 2011 warrants recorded as fair value adjustments in our consolidated statements of operations.

37

 
 
 
 
 
 
 
 
 
 
 
 
 
 
We recorded fair value adjustments on convertible notes and warrants as a gain of $7.6 million and a charge of $11.7 million for the

years ended December 31, 2011 and 2010, respectively.

Impairment of Long-Lived and Intangible Assets

Our long-lived assets have been primarily associated with the Pacific Ethanol Plants, reflecting the original cost of construction, adjusted

for any subsequent impairment.

We  assess  the  impairment  of  long-lived  assets,  including  property  and  equipment  and  purchased  intangibles  subject  to  amortization,
when events or changes in circumstances indicate that the fair value of each asset could be less than the net book value of the asset. We assess
long-lived  assets  for  impairment  by  first  determining  the  forecasted,  undiscounted  cash  flows  each  asset  is  expected  to  generate  plus  the  net
proceeds expected from the sale of the asset. If the amount of proceeds is less than the carrying value of the asset, we then determine the fair
value of the asset. An impairment loss would be recognized when the fair value is less than the related net book value, and an impairment expense
would be recorded in the amount of the difference. Forecasts of future cash flows are judgments based on our experience and knowledge of our
operations  and  the  industries  in  which  we  operate.  These  forecasts  could  be  significantly  affected  by  future  changes  in  market  conditions,  the
economic environment, including inflation, and the purchasing decisions of our customers.

We review our intangible assets with indefinite lives at least annually or more frequently if impairment indicators arise. In our review,
we determine the fair value of these assets using market multiples and discounted cash flow modeling and compare it to the net book value of the
acquired assets.

We did not recognize any asset impairment charges associated with the Pacific Ethanol Plants in 2011 or 2010.

Allowance for Doubtful Accounts

We sell ethanol primarily to gasoline refining and distribution companies and sell WDG to dairy operators and animal feed distributors.
We  had  significant  concentrations  of  credit  risk  from  sales  of  our  ethanol  as  of  December  31,  2011  and  2010,  as  described  in  Note  1  to  our
consolidated financial statements included elsewhere in this report. However, those ethanol customers historically have had good credit ratings
and  historically  we  have  collected  amounts  that  were  billed  to  those  customers.  Receivables  from  customers  are  generally  unsecured.  We
continuously monitor our customer account balances and actively pursue collections on past due balances.

We  maintain  an  allowance  for  doubtful  accounts  for  balances  that  appear  to  have  specific  collection  issues.  Our  collection  process  is
based on the age of the invoice and requires attempted contacts with the customer at specified intervals. If after a specified number of days, we
have been unsuccessful in our collection efforts, we consider recording a bad debt allowance for the balance in question. We would eventually
write-off  accounts  included  in  our  allowance  when  we  have  determined  that  collection  is  not  likely.  The  factors  considered  in  reaching  this
determination are the apparent financial condition of the customer, and our success in contacting and negotiating with the customer.

We recognized a recovery of bad debt expense of $0.2 million for each of the years ended December 31, 2011 and 2010.

38

 
 
 
 
 
 
 
 
 
 
 
 
 
Impact of New Accounting Pronouncements

On  May  12,  2011,  the  Financial  Accounting  Standards  Board  issued  Accounting  Standards  Update,  or  ASU,  No.  2011-04, Fair  Value
Measurement (Topic 820): Amendments to Achieve Common Fair Value Measurement and Disclosure Requirements in U.S. GAAP and IFRS.
ASU No. 2011-04 was issued concurrently with International Financial Reporting Standards, or IFRS, 13 Fair Value Measurements, to provide
largely identical guidance about fair value measurement and disclosure requirements. The new standards do not extend the use of fair value but,
rather, provide guidance about how fair value should be applied where it already is required or permitted under IFRS or United States generally
acceptable accounting principles. This standard is effective prospectively for interim and annual periods beginning after December 15, 2011. We
do not expect the adoption of this standard to have a material effect on our consolidated financial position, results of operations or cash flows.

Item 7A. Quantitative and Qualitative Disclosures About Market Risk.

Not applicable.

Item 8.

Financial Statements and Supplementary Data.

Reference is made to the financial statements, which begin at page F-1 of this report.

Item 9.

Changes in and Disagreements With Accountants on Accounting and Financial Disclosure.

None.

Item 9A. Controls and Procedures.

We  conducted  an  evaluation  under  the  supervision  and  with  the  participation  of  our  management,  including  our  Chief  Executive
Officer  and  Chief  Financial  Officer,  of  the  effectiveness  of  the  design  and  operation  of  our  disclosure  controls  and  procedures.  The  term
“disclosure controls and procedures,” as defined in Rules 13a-15(e) and 15d-15(e) under the Securities and Exchange Act of 1934, as amended
(“Exchange Act”), means controls and other procedures of a company that are designed to ensure that information required to be disclosed by the
company  in  the  reports  it  files  or  submits  under  the  Exchange  Act  is  recorded,  processed,  summarized  and  reported,  within  the  time  periods
specified  in  the  Securities  and  Exchange  Commission’s  rules  and  forms.  Disclosure  controls  and  procedures  also  include,  without  limitation,
controls and procedures designed to ensure that information required to be disclosed by a company in the reports that it files or submits under the
Exchange Act is accumulated and communicated to the company’s management, including its principal executive and principal financial officers,
or persons performing similar functions, as appropriate, to allow timely decisions regarding required disclosure. Based on this evaluation, our
Chief  Executive  Officer  and  Chief  Financial  Officer  concluded  as  of  December  31,  2011  that  our  disclosure  controls  and  procedures  were
effective at a reasonable assurance level.

39

 
 
 
 
 
 
 
 
 
 
 
 
Management’s Report on Internal Control Over Financial Reporting

Our management is responsible for establishing and maintaining adequate internal control over financial reporting as defined in Rules
13a-15(f)  and  15d-15(f)  under  the  Exchange  Act.  Our  internal  control  over  financial  reporting  is  designed  to  provide  reasonable  assurance
regarding  the  reliability  of  financial  reporting  and  the  preparation  of  financial  statements  for  external  purposes  in  accordance  with  generally
accepted accounting principles. Our internal control over financial reporting includes those policies and procedures that:

(i)

(ii)

pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of
our assets;

provide  reasonable  assurance  that  transactions  are  recorded  as  necessary  to  permit  preparation  of  financial  statements  in
accordance  with  generally  accepted  accounting  principles,  and  that  our  receipts  and  expenditures  are  being  made  only  in
accordance with authorizations of our management and directors; and

(iii)

provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use or disposition of our
assets that could have a material effect on our financial statements.

Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Also, projections of
any evaluation of effectiveness to future periods are subject to the risk that controls may become inadequate because of changes in conditions, or
that the degree of compliance with the policies or procedures may deteriorate.

A material weakness is defined by the Public Company Accounting Oversight Board’s Audit Standard No. 5 as being a deficiency, or
combination of deficiencies, in internal control over financial reporting, such that there is a reasonable possibility that a material misstatement of
the company’s annual or interim financial statements will not be prevented or detected on a timely basis by the company’s internal controls.

Management assessed and evaluated the effectiveness of our internal control over financial reporting as of December 31, 2011. Based
on  the  results  of  management’s  assessment  and  evaluation,  our  Chief  Executive  Officer  and  Chief  Financial  Officer  concluded  that  as  of
December 31, 2011, our internal control over financial reporting was effective.

In  making  its  assessment  of  our  internal  control  over  financial  reporting,  management  used  criteria  issued  by  the  Committee  of

Sponsoring Organizations of the Treadway Commission in its Internal Control—Integrated Framework.

Management's report was not subject to attestation by our certified registered public accounting firm pursuant to rules established by the

Securities and Exchange Commission that permit us to provide only management's report in this Annual Report on Form 10-K.

40

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Inherent Limitations on the Effectiveness of Controls

Management does not expect that our disclosure controls and procedures or our internal control over financial reporting will prevent or
detect all errors and all fraud. A control system, no matter how well conceived and operated, can provide only reasonable, not absolute, assurance
that the objectives of the control systems are met. Further, the design of a control system must reflect the fact that there are resource constraints,
and the benefits of controls must be considered relative to their costs. Because of the inherent limitations in a cost-effective control system, no
evaluation of internal control over financial reporting can provide absolute assurance that misstatements due to error or fraud will not occur or that
all control issues and instances of fraud, if any, have been or will be detected.

These inherent limitations include the realities that judgments in decision-making can be faulty and that breakdowns can occur because
of a simple error or mistake. Controls can also be circumvented by the individual acts of some persons, by collusion of two or more people, or by
management override of the controls. The design of any system of controls is based in part on certain assumptions about the likelihood of future
events, and there can be no assurance that any design will succeed in achieving its stated goals under all potential future conditions. Projections of
any evaluation of controls effectiveness to future periods are subject to risks. Over time, controls may become inadequate because of changes in
conditions or deterioration in the degree of compliance with policies or procedures.

Changes in Internal Control over Financial Reporting

There  has  been  no  change  in  our  internal  control  over  financial  reporting  (as  defined  in  Rules  13a-15(f)  and  15d-15(f)  under  the
Exchange  Act)  during  the  most  recently  completed  fiscal  quarter  that  has  materially  affected,  or  is  reasonably  likely  to  materially  affect,  our
internal control over financial reporting.

Item 9B.

Other Information.

None.

41

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Item 10.

Directors, Executive Officers and Corporate Governance.

PART III

The information under the captions “Information about our Board of Directors, Board Committees and Related Matters” and “Section

16(a) Beneficial Ownership Reporting Compliance,” appearing in the Proxy Statement, is hereby incorporated by reference.

Item 11.

Executive Compensation.

The  information  under  the  caption  “Executive  Compensation  and  Related  Information,”  appearing  in  the  Proxy  Statement,  is  hereby

incorporated by reference.

Item 12.

Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters.

The information under the captions “Security Ownership of Certain Beneficial Owners and Management” and “Equity Compensation

Plan Information,” appearing in the Proxy Statement, is hereby incorporated by reference.

Item 13.

Certain Relationships and Related Transactions, and Director Independence.

The information under the captions “Certain Relationships and Related Transactions” and “Information about our Board of Directors,

Board Committees and Related Matters—Director Independence” appearing in the Proxy Statement, is hereby incorporated by reference.

Item 14.

Principal Accounting Fees and Services.

The  information  under  the  caption  “Audit  Matters—Principal  Accountant  Fees  and  Services,”  appearing  in  the  Proxy  Statement,  is

hereby incorporated by reference.

Item 15.

Exhibits, Financial Statement Schedules.

(a)(1) Financial Statements

PART IV

Reference is made to the financial statements listed on and attached following the Index to Consolidated Financial Statements contained

on page F-1 of this report.

(a)(2) Financial Statement Schedules

None.

(a)(3) Exhibits

Reference is made to the exhibits listed on the Index to Exhibits.

42

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
INDEX TO CONSOLIDATED FINANCIAL STATEMENTS

Report of Independent Registered Public Accounting Firm

Consolidated Balance Sheets as of December 31, 2011 and 2010

Consolidated Statements of Operations for the Years Ended December 31, 2011 and 2010

Consolidated Statements of Stockholders’ Equity (Deficit) for the Years Ended December 31, 2011 and 2010

Consolidated Statements of Cash Flows for the Years Ended December 31, 2011 and 2010

Notes to Consolidated Financial Statements

F-2

F-3

F-5

F-6

F-7

F-8

F-1

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
REPORT OF INDEPENDENT REGISTERED PUBLIC ACCOUNTING FIRM

To the Board of Directors and Stockholders
Pacific Ethanol, Inc.

We have audited the accompanying consolidated balance sheets of Pacific Ethanol, Inc. (the “Company”) as of December 31, 2011 and 2010, and
the  related  consolidated  statements  of  operations,  stockholders'  equity  and  cash  flows  for  the  years  then  ended.  These  consolidated  financial
statements  are  the  responsibility  of  the  Company's  management.  Our  responsibility  is  to  express  an  opinion  on  these  consolidated  financial
statements based on our audits.

We conducted our audits in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards
require that we plan and perform the audit to obtain reasonable assurance about whether the financial statements are free of material misstatement.
The Company is not required to have, nor were we engaged to perform an audit of its internal control over financial reporting. Our audit included
consideration of internal control over financial reporting as a basis for designing audit procedures that are appropriate in the circumstances, but
not for the purpose of expressing an opinion on the effectiveness of the Company’s internal control over financial reporting. Accordingly, we
express  no  such  opinion.  An  audit  also  includes  examining,  on  a  test  basis,  evidence  supporting  the  amounts  and  disclosures  in  the  financial
statements, assessing the accounting principles used and significant estimates made by management, as well as evaluating the overall financial
statement presentation. We believe that our audits provide a reasonable basis for our opinion.

In  our  opinion,  the  consolidated  financial  statements  referred  to  above  present  fairly,  in  all  material  respects,  the  financial  position  of  Pacific
Ethanol, Inc. as of December 31, 2011 and 2010, and the results of its operations and its cash flows for the years then ended, in conformity with
U.S. generally accepted accounting principles.

/s/ HEIN & ASSOCIATES LLP

Irvine, California
March 8, 2012

F-2

 
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
CONSOLIDATED BALANCE SHEETS
(in thousands, except shares and par value)

ASSETS

Current Assets:

Cash and cash equivalents
Accounts receivable, net of allowance for doubtful accounts of $24 and $287, respectively
Inventories
Prepaid inventory
Other current assets

Total current assets

Total property and equipment, net
Other Assets:

Intangible assets, net
Other assets

Total other assets

Total Assets (a)

December 31,

2011

2010

  $

  $

8,914    $
28,140     
16,131     
9,239     
4,324     
66,748     

8,736 
25,855 
17,306 
2,715 
2,712 
57,324 

159,617     

168,976 

4,458     
1,653     
6,111     
232,476    $

5,382 
2,401 
7,783 
234,083 

(a)  Assets of consolidated variable interest entities that can only be used to settle obligations of those entities were $173,606 and $183,652

as of December 31, 2011 and 2010, respectively.

The accompanying notes are an integral part of these consolidated financial statements.

F-3

 
 
 
 
 
   
 
 
   
     
 
   
     
 
   
   
   
   
   
 
   
      
  
   
   
      
  
   
   
   
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
CONSOLIDATED BALANCE SHEETS (CONTINUED)
(in thousands, except shares and par value)

LIABILITIES AND STOCKHOLDERS’ EQUITY (DEFICIT)

Current Liabilities:

Accounts payable – trade
Accrued liabilities
Current portion – long-term debt (including $750 and $0 due to a related party, respectively, and $0

  $

and $38,108 at fair value, respectively)

Total current liabilities

Long-term debt, net of current portion (including $0 and $1,250 due to related parties, respectively)
Accrued preferred dividends
Other liabilities

December 31,

2011

2010

5,519    $
2,713     

750     
8,982     

93,689     
7,315     
3,226     

6,472 
3,251 

38,108 
47,831 

84,981 
6,050 
7,406 

Total Liabilities (b)

113,212     

146,268 

Commitments and contingencies (Notes 1, 5, 6 and 12)

Stockholders’ Equity:

Preferred stock, $0.001 par value; 10,000,000 shares authorized:
   Series A: 1,684,375 shares authorized; 0 shares issued and outstanding as of December 31, 2011

and 2010

   Series B: 1,580,790 shares authorized; 926,942 and 1,455,924 shares issued and outstanding as of

December 31, 2011 and 2010, respectively; liquidation preference of $25,390 as of December 31,
2011

Common stock, $0.001 par value; 300,000,000 shares authorized; 86,631,664 and 12,918,144

shares issued and outstanding as of December 31, 2011 and 2010, respectively

Additional paid-in capital
Accumulated deficit

Total Pacific Ethanol, Inc. Stockholders’ Equity (Deficit)

Noncontrolling interest in variable interest entities

Total stockholders’ equity

Total Liabilities and Stockholders’ Equity

—     

1     

87     
556,871     
(509,985)    
46,974     
72,290     
119,264     
232,476    $

— 

1 

13 
504,623 
(511,794)
(7,157)
94,972 
87,815 
234,083 

  $

(b) Liabilities of consolidated variable interest entities for which creditors do not have recourse to the general credit of the Company were

$76,478 and $74,939, as of December 31, 2011 and 2010, respectively.

The accompanying notes are an integral part of these consolidated financial statements.

F-4

 
 
 
 
 
 
   
 
   
     
 
   
   
   
 
   
      
  
   
   
   
 
   
      
  
   
 
   
      
  
   
      
  
 
   
      
  
   
      
  
   
      
  
   
   
   
   
   
   
   
   
 
 
 
 
 
PACIFIC ETHANOL, INC.
CONSOLIDATED STATEMENTS OF OPERATIONS
(in thousands, except per share data)

Net sales
Cost of goods sold
Gross profit (loss)
Selling, general and administrative expenses
Income (loss) from operations
Fair value adjustments on convertible notes and warrants
Loss on investment in Front Range
Loss on extinguishments of debt
Interest expense, net
Other income (expense), net
Loss before reorganization costs, gain from bankruptcy exit and provision for income taxes
Reorganization costs
Gain from bankruptcy exit
Provision for income taxes
Consolidated net income (loss)
Net loss attributed to noncontrolling interest in variable interest entities
Net income attributed to Pacific Ethanol, Inc.

Preferred stock dividends

Income available to common stockholders

Income per share, basic
Income per share, diluted

Weighted-average shares outstanding, basic

Weighted-average shares outstanding, diluted

  $

  $

  $

  $
  $

  $

Years Ended December 31,

2011

2010

901,188    $
881,789     
19,399     
15,427     
3,972     
7,559     
—     
—     
(14,813)    
(741)    
(4,023)    
—     
—     
—     
(4,023)    
7,097     
3,074    $

(1,265)   $

1,809    $
0.05    $

0.05    $

33,733     

33,984     

328,332 
329,143 
(811)
12,956 
(13,767)
(11,736)
(12,146)
(2,159)
(6,804)
840 
(45,772)
(4,153)
119,408 
— 
69,483 
4,409 
73,892 

(2,847)

71,045 
6.76 

5.57 

10,514 

13,377 

The accompanying notes are an integral part of these consolidated financial statements.

F-5

 
 
 
 
 
 
 
   
 
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
 
 
 
 
PACIFIC ETHANOL, INC.
CONSOLIDATED STATEMENTS OF STOCKHOLDERS’ EQUITY
FOR THE YEARS ENDED DECEMBER 31, 2011 and 2010
(in thousands)

 Preferred Stock

Common Stock

Shares

2,346 

  Amount
 $

2 

Shares

8,210 

  Amount
 $

Non-

controlling    

    Additional    
Paid-In
    Capital
8 

480,997 

 $

    Accumulated   
    Deficit

 $

(581,076)  $

Interest
in VIE    
42,271 

 $

Total

(57,798)

Balances, January 1, 2010

Deconsolidation of Front

Range

Consolidation of New PE

Holdco

Stock-based compensation

expense – restricted stock to
employees and directors, net
of cancellations

Conversion of preferred stock

to common stock

Shares issued in debt
extinguishments

Preferred stock dividends

Net income (loss)

— 

— 

— 

(890)

— 

— 

— 

Balances, December 31, 2010   

1,456 

 $

Stock-based compensation

expense – restricted stock
and options to employees and
directors, net of
cancellations

Conversion of preferred stock

to common stock

Shares issued on Convertible

Notes

Shares issued in private

placement

Warrant exercises

Purchase of interests in New

PE Holdco

Preferred stock dividends

Net income (loss)

— 

(529)

— 

— 

— 

— 

— 

— 

Balances, December 31, 2011   

927 

 $

— 

— 

— 

(1)

— 

— 

— 

1 

— 

— 

— 

— 

— 

— 

— 

— 

1 

— 

— 

560 

707 

3,441 

— 

— 

— 

— 

1 

1 

3 

— 

— 

— 

— 

2,470 

— 

21,156 

— 

— 

(1,763)   

(42,271)   

(44,034)

— 

99,381 

99,381 

— 

— 

— 

(2,847)   

— 

— 

— 

— 

2,471 

— 

21,159 

(2,847)

73,892 

(4,409)   

69,483 

12,918 

 $

13 

 $

504,623 

 $

(511,794)  $

94,972 

 $

87,815 

264 

444 

63,859 

7,625 

1,522 

— 

— 

— 

— 

— 

64 

8 

2 

— 

— 

— 

2,278 

— 

36,800 

5,547 

1,155 

— 

— 

— 

— 

— 

— 

— 

2,278 

— 

— 

36,864 

— 

— 

5,555 

1,157 

6,468 

— 

(15,585)   

(9,117)

— 

— 

(1,265)   

— 

(1,265)

3,074 

(7,097)   

(4,023)

86,632 

 $

87 

 $

556,871 

 $

(509,985)  $

72,290 

 $

119,264 

The accompanying notes are an integral part of these consolidated financial statements.

F-6

 
 
 
 
 
 
 
 
 
 
   
 
 
 
 
 
 
   
   
 
 
 
 
 
 
 
 
   
 
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
 
 
PACIFIC ETHANOL, INC.
CONSOLIDATED STATEMENTS OF CASH FLOWS
(in thousands)

Operating Activities:

Consolidated net income (loss)
Adjustments to reconcile consolidated net income (loss) to cash used in operating activities:

  $

(4,023)   $

69,483 

For the Years Ended December
31,

2011

2010

Fair value adjustments on convertible notes and  warrants
Depreciation and amortization of intangibles
Inventory valuation
Gain on derivative instruments
Amortization of deferred financing costs
Non-cash compensation
Bad debt recovery
Interest on convertible debt paid with stock
Gain on bankruptcy exit
Loss on investment in Front Range, held for sale
Loss on extinguishments of debt
Bargain purchase of New PE Holdco
Equity earnings on Front Range
Changes in operating assets and liabilities:

Accounts receivable
Inventories
Prepaid expenses and other assets
Prepaid inventory
Accounts payable and accrued expenses
Net cash used in operating activities

Investing Activities:

Additions to property and equipment
Investments in New PE Holdco, net of cash acquired
Proceeds from sale of investment in Front Range
Net cash impact of deconsolidation of Front Range
Net cash impact of bankruptcy exit

Net cash used in investing activities

Financing Activities:

Net proceeds from common stock and warrants
Proceeds from convertible notes and warrants
Principal payments on convertible notes
Payments for debt issuance costs
Proceeds from borrowings under DIP financing
Net proceeds from other borrowings
Principal payments paid on related party borrowings
Net cash provided by financing activities

Net increase (decrease) in cash and cash equivalents
Cash and cash equivalents at beginning of period
Cash and cash equivalents at end of period

Supplemental Information:

Interest paid

Non-cash financing and investing activities:

Preferred stock dividends accrued

Debt extinguished with issuance of common stock

Reclass of warrant liability to equity upon cashless net exercise of warrants

(7,559)    
12,648     
47     
(96)    
651     
2,278     
(218)    
3,076     
—     
—     
—     
—     
—     

(2,067)    
1,128     
(933)    
(6,524)    
(2,358)    
(3,950)   $

(2,365)   $
(9,117)    
—     
—     
—     
(11,482)   $

7,364    $
—     
(1,212)    
—     
—     
9,958     
(500)    
15,610    $
178     
8,736     
8,914    $

11,736 
9,110 
(490)
(1,049)
1,001 
2,471 
(184)
— 
(119,408)
12,146 
2,159 
(1,566)
928 

(13,789)
(7,462)
(516)
477 
(1,968)
(36,921)

(643)
(19,494)
18,500 
(10,486)
(1,301)
(13,424)

— 
35,000 
— 
(2,909)
5,173 
17,522 
(13,250)
41,536 
(8,809)
17,545 
8,736 

11,669    $

9,771 

1,265    $

33,788    $

1,157    $

2,847 

19,000 

— 

  $

  $

  $

  $

  $

  $

  $

  $

  $

  $

The accompanying notes are an integral part of these consolidated financial statements.

F-7

 
 
 
 
 
 
 
 
   
 
   
     
 
   
      
  
   
   
   
   
   
   
   
   
   
   
   
   
   
   
      
  
   
   
   
   
   
 
   
      
  
   
      
  
   
   
   
   
 
   
      
  
   
      
  
   
   
   
   
   
   
   
   
 
   
      
  
   
      
  
   
      
  
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

1.

ORGANIZATION AND SIGNIFICANT ACCOUNTING POLICIES.

Organization and Business – The consolidated financial statements include the accounts of Pacific Ethanol, Inc., a Delaware corporation (“Pacific
Ethanol”),  and  its  wholly-owned  subsidiaries,  including  Pacific  Ethanol  California,  Inc.,  a  California  corporation  (“PEI  California”),  Kinergy
Marketing, LLC, an Oregon limited liability company (“Kinergy”) and Pacific Ag. Products, LLC, a California limited liability company (“PAP”)
for  all  periods  presented,  and  for  the  periods  specified  below,  New  PE  Holdco,  which  owns  the  Plant  Owners  (each  as  defined  below)
(collectively, the “Company”).

The Company is the leading marketer and producer of low carbon renewable fuels in the Western United States. The Company also sells ethanol
co-products,  including  wet  distillers  grain  (“WDG”),  and  provides  transportation,  storage  and  delivery  of  ethanol  through  third-party  service
providers in the Western United States, primarily in California, Arizona, Nevada, Utah, Oregon, Colorado, Idaho and Washington. The Company
sells ethanol produced by the Pacific Ethanol Plants (as defined below) and unrelated third parties to gasoline refining and distribution companies
and sells its WDG to dairy operators and animal feed distributors.

On  May  17,  2009,  five  indirect  wholly-owned  subsidiaries  of  Pacific  Ethanol,  Inc.,  namely,  Pacific  Ethanol  Madera  LLC,  Pacific  Ethanol
Columbia, LLC, Pacific Ethanol Stockton, LLC and Pacific Ethanol Magic Valley, LLC (collectively, the “Pacific Ethanol Plants”) and Pacific
Ethanol Holding Co. LLC (together with the Pacific Ethanol Plants, the “Plant Owners”) each filed voluntary petitions for relief under chapter 11
of  Title  11  of  the  United  States  Code  (the  “Bankruptcy  Code”)  in  the  United  States  Bankruptcy  Court  for  the  District  of  Delaware  (the
“Bankruptcy Court”) in an effort to restructure their indebtedness (the “Chapter 11 Filings”). Pacific Ethanol, PEI California, Kinergy and PAP
did not, at any time, file for protection under the Bankruptcy Code.

On June 29, 2010 (the “Effective Date”), the Plant Owners declared effective their amended joint plan of reorganization (the “Plan”) with the
Bankruptcy Court, which was structured in cooperation with certain of the Plant Owners’ secured lenders. Under the Plan, on the Effective Date,
100% of the ownership interests in the Plant Owners were transferred to a newly-formed limited liability company, New PE Holdco, LLC (“New
PE Holdco”) which became at that time wholly-owned by certain prepetition lenders, resulting in each of the Plant Owners becoming wholly-
owned subsidiaries of New PE Holdco.

The  Company  manages  the  production  and  operation  of  the  Pacific  Ethanol  Plants.  These  four  facilities  have  an  aggregate  annual  production
capacity of up to 200 million gallons. As of December 31, 2011, three of the facilities were operating and one of the facilities was idled. When
market conditions permit, and with approval of New PE Holdco, the Company intends to resume operations at the Madera, California facility.

On October 6, 2010, the Company purchased a 20% ownership interest in New PE Holdco, a variable interest entity (“VIE”), from a number of
New  PE  Holdco’s  owners.  At  that  time,  the  Company  determined  it  was  the  primary  beneficiary  of  New  PE  Holdco,  and  as  such,  has
consolidated the results of New PE Holdco since then. See Note 2 – Variable Interest Entities. On each of November 29, 2011 and December 19,
2011, the Company purchased an additional 7% interest in New PE Holdco, bringing the Company’s total ownership interest in New PE Holdco
to 34%. As of December 31, 2011, the Company held a 34% ownership interest in New PE Holdco.

Basis  of  Presentation  –  The  consolidated  financial  statements  and  related  notes  have  been  prepared  in  accordance  with  accounting  principles
generally accepted in United States (“GAAP”) and include the accounts of the Company. All significant intercompany accounts and transactions
have been eliminated in consolidation.

F-8

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Consolidation of Variable Interest Entities – Effective January 1, 2010, the Company adopted the amended guidance in the Financial Standards
Accounting Board’s Accounting Standards Codification 810, Consolidation, surrounding a company’s analysis to determine whether any of its
variable interests constitute controlling financial interests in a VIE. This analysis identifies the primary beneficiary of a VIE as the enterprise that
has  both  of  the  following  characteristics:  (i)  the  power  to  direct  the  activities  of  a  VIE  that  most  significantly  impact  the  entity’s  economic
performance, and (ii) the obligation to absorb losses of the entity that could potentially be significant to the VIE or the right to receive benefits
from the entity that could potentially be significant to the VIE. Additionally, an enterprise is required to assess whether it has an implicit financial
responsibility to ensure that a VIE operates as designed when determining whether it has the power to direct the activities of the VIE that most
significantly impact the entity’s economic performance. The amended guidance also requires ongoing reassessments of whether an enterprise is
the primary beneficiary of a VIE.

Since  January  1,  2010,  the  Company  identified  Front  Range  Energy,  LLC  (“Front  Range”),  an  entity  in  which  the  Company  held  a  42%
ownership interest, and New PE Holdco as VIEs.

Prior  to  January  1,  2010,  under  the  original  guidance,  the  Company  determined  that  it  must  consolidate  Front  Range,  which  owns  an  ethanol
plant located in Windsor, Colorado, with an annual production capacity of up to 50 million gallons. Under the amended guidance, the Company
determined effective January 1, 2010, that it was no longer the primary beneficiary of Front Range and, as a result, no longer consolidated Front
Range’s results and instead recorded its investment in Front Range under the equity method of accounting. On October 6, 2010, the Company
sold its entire 42% ownership interest in Front Range.

On  the  Effective  Date,  the  Company  determined  that  New  PE  Holdco  was  a  VIE,  however,  the  Company  did  not  believe  it  was  New  PE
Holdco’s  primary  beneficiary.  On  October  6,  2010,  upon  the  Company’s  purchase  of  a  20%  interest  in  New  PE  Holdco,  the  Company
determined that it was New PE Holdco’s primary beneficiary and began consolidating the results of New PE Holdco. As long as the Company is
deemed  New  PE  Holdco’s  primary  beneficiary,  the  Company  must  treat  New  PE  Holdco  as  a  consolidated  subsidiary  for  financial  reporting
purposes.

Reverse Stock Split – On June 8, 2011, the Company effected a one-for-seven reverse stock split. All share and per share information has been
restated to retroactively show the effect of this stock split.

Liquidity  –  The  Company  believes  that  current  and  future  available  capital  resources,  revenues  generated  from  operations,  and  other  existing
sources of liquidity, including its credit facilities, will be adequate to meet its anticipated working capital and capital expenditure requirements for
at  least  the  next  twelve  months.  If,  however,  the  Company’s  capital  requirements  or  cash  flow  vary  materially  from  its  current  projections,  if
unforeseen circumstances occur, or if the Company requires a significant amount of cash to fund future acquisitions, the Company may require
additional financing. The Company’s failure to raise capital, if needed, could restrict its growth, or hinder its ability to compete.

Cash and Cash Equivalents – The Company considers all highly-liquid investments with an original maturity of three months or less to be cash
equivalents.

Accounts  Receivable  and  Allowance  for  Doubtful  Accounts  –  Trade  accounts  receivable  are  presented  at  face  value,  net  of  the  allowance  for
doubtful accounts. The Company sells ethanol to gasoline refining and distribution companies and sells WDG to dairy operators and animal feed
distributors generally without requiring collateral. Due to a limited number of ethanol customers, the Company had significant concentrations of
credit risk from sales of ethanol as of December 31, 2011 and 2010, as described below.

F-9

 
 
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The Company maintains an allowance for doubtful accounts for balances that appear to have specific collection issues. The collection process is
based on the age of the invoice and requires attempted contacts with the customer at specified intervals. If, after a specified number of days, the
Company  has  been  unsuccessful  in  its  collection  efforts,  a  bad  debt  allowance  is  recorded  for  the  balance  in  question.  Delinquent  accounts
receivable are charged against the allowance for doubtful accounts once uncollectibility has been determined. The factors considered in reaching
this  determination  are  the  apparent  financial  condition  of  the  customer  and  the  Company’s  success  in  contacting  and  negotiating  with  the
customer.  If  the  financial  condition  of  the  Company’s  customers  were  to  deteriorate,  resulting  in  an  impairment  of  ability  to  make  payments,
additional allowances may be required.

Of  the  accounts  receivable  balance,  approximately  $23,715,000  and  $20,977,000  at  December  31,  2011  and  2010,  respectively,  were  used  as
collateral under Kinergy’s working capital line of credit. The allowance for doubtful accounts was $24,000 and $287,000 as of December 31,
2011 and 2010, respectively. The Company recorded a bad debt recovery of $218,000 and $184,000 for the years ended December 31, 2011 and
2010, respectively. The Company does not have any off-balance sheet credit exposure related to its customers.

Concentrations of Credit Risk – Credit risk represents the accounting loss that would be recognized at the reporting date if counterparties failed
completely to perform as contracted. Concentrations of credit risk, whether on- or off-balance sheet, that arise from financial instruments exist for
groups  of  customers  or  counterparties  when  they  have  similar  economic  characteristics  that  would  cause  their  ability  to  meet  contractual
obligations to be similarly affected by changes in economic or other conditions described below. Financial instruments that subject the Company
to  credit  risk  consist  of  cash  balances  maintained  in  excess  of  federal  depository  insurance  limits  and  accounts  receivable,  which  have  no
collateral or security. The Company has not experienced any losses in such accounts and believes that it is not exposed to any significant risk of
loss of cash.

The Company sells fuel-grade ethanol to gasoline refining and distribution companies. The Company had one customer representing 22% and
19% of total net sales for the years ended December 31, 2011 and 2010, respectively. The Company did not have any other customers with sales
of 10% or more of total net sales.

The Company had accounts receivable due from this customer totaling $6,267,000 and $6,326,000, representing 22% and 24% of total accounts
receivable as of December 31, 2011 and 2010, respectively.

The  Company  purchases  fuel-grade  ethanol  and  corn,  its  largest  cost  component  in  producing  ethanol,  from  its  suppliers.  The  Company  had
purchases  from  ethanol  and  corn  suppliers  representing  10%  or  more  of  total  purchases  by  the  Company  in  the  purchase  and  production  of
ethanol as follows:

Supplier A
Supplier B
Supplier C

Years Ended December 31,

2011
39%
13%
12%

2010
31%
16%
13%

F-10

 
 
 
 
 
 
 
 
 
 
 
 
 
 
   
 
   
     
 
   
     
 
   
     
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Inventories –  Inventories  consisted  primarily  of  bulk  ethanol  and  unleaded  fuel,  and  are  valued  at  the  lower-of-cost-or-market,  with  cost
determined on a first-in, first-out basis. Inventory balances consisted of the following (in thousands):

Finished goods
Work in progress
Raw materials
Other
Total

December 31,

2011

2010

  $

  $

9,429    $
4,284     
1,334     
1,084     
16,131    $

11,105 
4,087 
1,308 
806 
17,306 

Property and Equipment – Property and equipment are stated at cost. Depreciation is computed using the straight-line method over the following
estimated useful lives:

Buildings
Facilities and plant equipment
Other equipment, vehicles and furniture

 40 years
 10 – 25 years
 5 – 10 years

The cost of normal maintenance and repairs is charged to operations as incurred. Significant capital expenditures that increase the life of an asset
are capitalized and depreciated over the estimated remaining useful life of the asset. The cost of fixed assets sold, or otherwise disposed of, and
the  related  accumulated  depreciation  or  amortization  are  removed  from  the  accounts,  and  any  resulting  gains  or  losses  are  reflected  in  current
operations.

Intangible  Assets  –  The  Company  amortizes  intangible  assets  with  definite  lives  using  the  straight-line  method  over  their  established  lives,
generally  2-10  years.  Additionally,  the  Company  tests  these  assets  with  established  lives  for  impairment  if  conditions  exist  that  indicate  that
carrying values may not be recoverable. Possible conditions leading to the unrecoverability of these assets include changes in market conditions,
changes in future economic conditions or changes in technological feasibility that impact the Company’s assessments of future operations. If the
Company  determines  that  an  impairment  charge  is  needed,  the  charge  will  be  recorded  in  selling,  general  and  administrative  expenses  in  the
consolidated statements of operations.

Deferred Financing Costs – Deferred financing costs, which are included in other assets, are costs incurred to obtain debt financing, including all
related fees, and are amortized as interest expense over the term of the related financing using the straight-line method which approximates the
interest rate method. Amortization of deferred financing costs was $651,000 and $1,001,000 for the years ended December 31, 2011 and 2010,
respectively. Unamortized deferred financing costs were approximately $1,017,000 at December 31, 2011 and are recorded in other assets in the
consolidated balance sheets.

Derivative Instruments and Hedging Activities – Derivative transactions, which can include forward contracts and futures positions on the New
York  Mercantile  Exchange  and  the  Chicago  Board  of  Trade  and  interest  rate  caps  and  swaps  are  recorded  on  the  balance  sheet  as  assets  and
liabilities based on the derivative’s fair value. Changes in the fair value of derivative contracts are recognized currently in income unless specific
hedge accounting criteria are met. If derivatives meet those criteria, effective gains and losses are deferred in accumulated other comprehensive
income (loss) and later recorded together with the hedged item in consolidated income (loss). For derivatives designated as a cash flow hedge, the
Company  formally  documents  the  hedge  and  assesses  the  effectiveness  with  associated  transactions.  The  Company  has  designated  and
documented contracts for the physical delivery of commodity products to and from counterparties as normal purchases and normal sales.

F-11

 
 
 
 
 
 
 
 
   
 
   
   
   
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Revenue Recognition – The Company recognizes revenue when it is realized or realizable and earned. The Company considers revenue realized or
realizable and earned when there is persuasive evidence of an arrangement, delivery has occurred, the sales price is fixed or determinable, and
collection is reasonably assured. The Company derives revenue primarily from sales of ethanol and related co-products. The Company recognizes
revenue when title transfers to its customers, which is generally upon the delivery of these products to a customer’s designated location. These
deliveries are made in accordance with sales commitments and related sales orders entered into with customers either verbally or in written form.
The sales commitments and related sales orders provide quantities, pricing and conditions of sales. In this regard, the Company engages in three
basic types of revenue generating transactions:

·

·

·

As a producer. Sales as a producer consist of sales of the Company’s inventory produced at the Pacific Ethanol Plants.

As a merchant.  Sales  as  a  merchant  consist  of  sales  to  customers  through  purchases  from  third-party  suppliers  in  which  the
Company  may  or  may  not  obtain  physical  control  of  the  ethanol  or  co-products,  in  which  shipments  are  directed  from  the
Company’s  suppliers  to  its  terminals  or  direct  to  its  customers  but  for  which  the  Company  accepts  the  risk  of  loss  in  the
transactions.

As an agent. Sales as an agent consist of sales to customers through purchases from third-party suppliers in which the risks and
rewards of inventory ownership remain with third-party suppliers and the Company receives a predetermined service fee under
these transactions.

Revenue from sales of third-party ethanol and co-products is recorded net of costs when the Company is acting as an agent between a customer
and a supplier and gross when the Company is a principal to the transaction. The Company recorded $2,856,000 and $3,043,000 in net sales
when acting as an agent for the years ended December 31, 2011 and 2010, respectively. Several factors are considered to determine whether the
Company is acting as an agent or principal, most notably whether the Company is the primary obligor to the customer and whether the Company
has inventory risk and related risk of loss or whether the Company adds meaningful value to the supplier’s product or service. Consideration is
also given to whether the Company has latitude in establishing the sales price or has credit risk, or both. When the Company acts as an agent, it
recognizes revenue on a net basis or recognizes its predetermined fees and any associated freight, based upon the amount of net revenues retained
in excess of amounts paid to suppliers.

The Company records revenues based upon the gross amounts billed to its customers in transactions where the Company acts as a producer or a
merchant  and  obtains  title  to  ethanol  and  its  co-products  and  therefore  owns  the  product  and  any  related,  unmitigated  inventory  risk  for  the
ethanol, regardless of whether the Company actually obtains physical control of the product.

Shipping  and  Handling  Costs  –  Shipping  and  handling  costs  are  classified  as  a  component  of  cost  of  goods  sold  in  the  accompanying
consolidated statements of operations.

F-12

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

California Ethanol Producer Incentive Program – The Company is eligible to participate in the California Ethanol Producer Incentive Program
(“CEPIP”)  through  the  Pacific  Ethanol  Plants  located  in  California.  The  CEPIP  is  a  program  that  may  provide  funds  to  an  eligible  California
facility—up  to  $0.25  per  gallon  of  production—when  current  production  corn  crush  spreads,  measured  as  the  difference  between  specified
ethanol and corn index prices, drop below $0.55 per gallon. The program may provide up to $3,000,000 per plant per year of operation through
2014. For any month in which a payment is made by the CEPIP, the Company may be required to reimburse the funds within the subsequent five
years from each payment date, if the corn crush spreads exceed $1.00 per gallon. Since these funds are provided to subsidize current production
costs and encourage eligible facilities to either continue production or start up production in low margin environments, the Company records the
proceeds,  if  any,  as  a  credit  to  cost  of  goods  sold.  The  Company  will  assess  the  likelihood  of  reimbursement  in  future  periods  as  corn  crush
spreads approach $1.00 per gallon. If it becomes likely that amounts may be reimbursable by the Company, the Company will accrue a liability
for such payment and recognize the costs as an increase in cost of goods sold. The Company recorded $1,481,000 and $519,000 as a reduction to
cost of goods sold for the years ended December 31, 2011 and 2010, respectively, in respect of CEPIP payments received. To date, the Company
has not been required to reimburse any amounts, and based on historical corn crush spreads, the Company does not believe it will be required to
make any reimbursements in the foreseeable future.

Stock-Based Compensation – The Company accounts for the cost of employee services received in exchange for the award of equity instruments
based on the fair value of the award, determined on the date of grant. The expense is to be recognized over the period during which an employee
is  required  to  provide  services  in  exchange  for  the  award.  The  Company  estimates  forfeitures  at  the  time  of  grant  and  makes  revisions,  if
necessary,  in  the  second  quarter  of  each  year  if  actual  forfeitures  differ  from  those  estimates.  Based  on  historical  experience,  the  Company
estimated  future  unvested  forfeitures  at  5%  for  the  years  ended  December  31,  2011  and  2010.  The  Company  recognizes  stock-based
compensation expense as a component of selling, general and administrative expenses in the consolidated statements of operations.

Impairment of Long-Lived Assets – The Company assesses the impairment of long-lived assets, including property and equipment and purchased
intangibles subject to amortization, when events or changes in circumstances indicate that the fair value of assets could be less than their net book
value. In such event, the Company assesses long-lived assets for impairment by first determining the forecasted, undiscounted cash flows the
asset is expected to generate plus the net proceeds expected from the sale of the asset. If this amount is less than the carrying value of the asset,
the Company will then determine the fair value of the asset. An impairment loss would be recognized when the fair value is less than the related
asset’s  net  book  value,  and  an  impairment  expense  would  be  recorded  in  the  amount  of  the  difference.  Forecasts  of  future  cash  flows  are
judgments based on the Company’s experience and knowledge of its operations and the industries in which it operates. These forecasts could be
significantly  affected  by  future  changes  in  market  conditions,  the  economic  environment,  including  inflation,  and  purchasing  decisions  of  the
Company’s customers.

Income Taxes – Income taxes are accounted for under the asset and liability approach, where deferred tax assets and liabilities are determined
based on differences between financial reporting and tax basis of assets and liabilities, and are measured using enacted tax rates and laws that are
expected to be in effect when the differences reverse. Valuation allowances are established when necessary to reduce deferred tax assets to the
amounts expected to be realized.

The Company accounts for uncertainty in income taxes using a two-step approach to recognizing and measuring uncertain tax positions. The first
step is to evaluate the tax position for recognition by determining whether it is more likely than not that the position will be sustained on audit,
including resolution of related appeals or litigation processes, if any. The second step is to measure the tax benefit as the largest amount which is
more than 50% likely of being realized upon ultimate settlement. An uncertain tax position is considered effectively settled on completion of an
examination  by  a  taxing  authority  if  certain  other  conditions  are  satisfied.  Should  the  Company  incur  interest  and  penalties  relating  to  tax
uncertainties, such amounts would be classified as a component of interest expense, net and other income (expense), net, respectively.

F-13

 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Income Per Share – Basic income per share is computed on the basis of the weighted-average number of shares of common stock outstanding
during the period. Preferred dividends are deducted from net income attributed to Pacific Ethanol, Inc. and are considered in the calculation of
income available to common stockholders in computing basic income per share.

The following tables compute basic and diluted earnings per share (in thousands, except per share data):

Net income attributed to Pacific Ethanol, Inc.
Preferred stock dividends
Basic income per share:
Income available to common stockholders
Warrants
Options
Diluted income per share:
Income available to common stockholders

Net income attributed to Pacific Ethanol, Inc.
Preferred stock dividends
Basic income per share:
Income available to common stockholders
Convertible notes
Preferred stock dividends
Warrants
Diluted income per share:
Income available to common stockholders

  $

  $

  $

  $

  $

Year Ended December 31, 2011
Shares

Denominator    

Income
Numerator

Per-Share
Amount

3,074     
(1,265)    

1,809     
—     
—     

33,733    $
194     
57     

0.05 

1,809     

33,984    $

0.05 

Year Ended December 31, 2010
Shares

Denominator    

Income
Numerator

Per-Share
Amount

73,892     
(2,847)    

71,045     
657     
2,847     
—     

6.76 

10,514    $
1,524     
1,198     
141     

  $

74,549     

13,377    $

5.57 

The Company has accrued and unpaid dividends of $7,315,000, or $0.08 per share of common stock outstanding as of December 31, 2011, in
respect of its Series B Cumulative Convertible Preferred Stock (“Series B Preferred Stock”).

There were an aggregate of 815,000 and 1,666,000 potentially dilutive shares from convertible securities outstanding as of December 31, 2011
and  2010,  respectively.  These  convertible  securities  were  not  considered  in  calculating  diluted  income  per  common  share  for  the  years  ended
December 31, 2011 and 2010, as their effect would be anti-dilutive.

Financial Instruments  –  The  carrying  values  of  cash  and  cash  equivalents,  accounts  receivable,  accounts  payable  and  accrued  liabilities  are
reasonable estimates of their fair values because of the short maturity of these items. The Company recorded at fair value its convertible notes and
warrants.  The  Company  believes  the  carrying  values  of  its  other  notes  payable  and  long-term  debt  approximate  fair  value  because  the  interest
rates on these instruments are variable.

F-14

 
 
 
 
 
 
 
 
 
 
   
 
     
 
   
     
 
   
      
     
 
   
  
   
  
   
      
      
  
 
 
 
 
 
 
   
 
     
 
   
     
 
   
      
     
 
   
  
   
  
   
  
   
      
      
  
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Estimates and Assumptions – The preparation of the consolidated financial statements in conformity with GAAP requires management to make
estimates and assumptions that affect the reported amounts of assets and liabilities and disclosure of contingent assets and liabilities at the date of
the financial statements and the reported amounts of revenues and expenses during the reporting period. Significant estimates are required as part
of  determining  the  consolidation  of  VIEs,  fair  value  of  convertible  notes  and  warrants,  allowance  for  doubtful  accounts,  estimated  lives  of
property and equipment and intangibles, long-lived asset impairments, valuation allowances on deferred income taxes and the potential outcome
of future tax consequences of events recognized in the Company’s financial statements or tax returns. Actual results and outcomes may materially
differ from management’s estimates and assumptions.

Subsequent Events – Management evaluates, as of each reporting period, events or transactions that occur after the balance sheet date through the
date that the financial statements are issued for either disclosure or adjustment to the consolidated financial results. The Company has evaluated
subsequent events up through the date of the filing of this report with the Securities and Exchange Commission.

Reclassifications – Certain prior year amounts have been reclassified to conform to the current presentation. Such reclassification had no effect on
the consolidated net income (loss) reported in the consolidated statements of operations.

Recent  Accounting  Pronouncements  –  On  May  12,  2011,  the  Financial  Accounting  Standards  Board  issued  Accounting  Standards  Update
(“ASU”)  No.  2011-04, Fair  Value  Measurement  (Topic  820):  Amendments  to  Achieve  Common  Fair  Value  Measurement  and  Disclosure
Requirements in U.S. GAAP and IFRS. ASU No. 2011-04 was issued concurrently with International Financial Reporting Standards (“IFRS”)
13 Fair Value Measurements, to provide largely identical guidance about fair value measurement and disclosure requirements. The new standards
do not extend the use of fair value but, rather, provide guidance about how fair value should be applied where it already is required or permitted
under  IFRS  or  U.S.  GAAP.  This  standard  is  effective  prospectively  for  interim  and  annual  periods  beginning  after  December  15,  2011.  The
Company  does  not  expect  the  adoption  of  this  standard  to  have  a  material  effect  on  the  Company’s  consolidated  financial  position,  results  of
operations or cash flows.

2.

VARIABLE INTEREST ENTITIES.

Consolidation of New PE Holdco – The Company concluded that at all times since its inception, New PE Holdco has been a VIE because the
owners of New PE Holdco, due to the Company’s involvement through the contractual arrangements discussed below, have at all times lacked
the power to direct the activities that most significantly impacted its economic performance. Some of these activities include efficient management
and  operation  of  the  Pacific  Ethanol  Plants,  sale  of  ethanol,  the  procurement  of  feedstock,  sale  of  co-products  and  implementation  of  risk
management strategies. At the time of its inception, however, the Company did not have an obligation to absorb losses or receive benefits that
could  potentially  be  significant  to  New  PE  Holdco  and,  as  a  result,  it  was  determined  that  the  Company  was  not  New  PE  Holdco’s  primary
beneficiary.  Upon  the  Company’s  purchase  of  its  20%  ownership  interest  in  New  PE  Holdco  on  October  6,  2010,  the  Company,  through  its
ownership interest, had an obligation to absorb losses and receive benefits that could potentially be significant to New PE Holdco. As a result, the
Company  then  became  the  primary  beneficiary  of  New  PE  Holdco  and  began  consolidating  the  financial  results  of  New  PE  Holdco.  The
Company  purchased  its  20%  ownership  interest  in  New  PE  Holdco  from  a  number  of  New  PE  Holdco’s  owners.  The  Company  paid
$23,280,000 in cash for its 20% interest, which was approximately $1,566,000 below the fair value of New PE Holdco, which was recognized
as a bargain purchase in other income (expense), net, in the consolidated statements of operations for the year ended December 31, 2010. The
bargain purchase was determined based on the fair value of the net assets of New PE Holdco, using a combination of market data and the income
approach. The Company allocated fair value to both its investment and its noncontrolling interest in the VIE.

F-15

 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The following table summarizes the Company’s estimated fair values of New PE Holdco’s tangible and intangible assets and liabilities acquired
(in thousands):

Cash
Other current assets
Property and equipment
Other assets
Tradename

Total Assets

Total current liabilities
Long term debt
Other noncurrent liabilities
Total Liabilities

Noncontrolling interest in variable interest entity

Net Assets

  $

  $

3,786 
20,336 
170,486 
1,195 
800 
196,603 

(8,522)
(51,279)
(12,575)
(72,376)
(99,381)
24,846 

On November 29, 2011, the Company purchased an additional 7% ownership interest in New PE Holdco for $4,502,000 in cash. On December
19,  2011,  the  Company  purchased  another  7%  ownership  interest  in  New  PE  Holdco  for  $4,615,000  in  cash.  Because  the  Company  has  a
controlling  financial  interest  in  New  PE  Holdco,  it  did  not  record  any  gain  or  loss  on  these  purchases,  but  instead  reduced  the  amount  of
noncontrolling interest in VIEs on the consolidated balance sheets by an aggregate $15,585,000 and recorded the difference of $6,468,000, which
represents the fair value of these purchases above the price paid by the Company, to additional paid-in capital on the consolidated balance sheets.

Since the Company’s original purchase of its 20% interest in New PE Holdco, the Company has recognized approximately $512,497,000 and
$72,827,000 in net sales and $6,226,000 in net income and $5,727,000 in net losses attributed to New PE Holdco for the years ended December
31, 2011 and 2010, respectively. The Company owned the Plant Owners and consolidated their results for the first half of 2010, resulting in the
Company  reporting  the  results  of  the  Plant  Owners  for  three  of  the  four  fiscal  quarters  in  2010.  For  the  year  ended  December  31,  2010,  the
Company reported net sales of $328,332,000 and net income of $73,892,000 attributed to Pacific Ethanol. Had the Company consolidated the
results  of  New  PE  Holdco  for  all  of  2010,  the  Company  would  have  reported  net  sales  of  approximately  $383,956,000  and  net  income  of
$70,330,000 attributed to Pacific Ethanol. Because the Plant Owners were consolidated with the Company’s results for all of 2011, there are no
differences with the Company’s reported results for that year.

The Company’s acquisition of its ownership interest in New PE Holdco does not impact the Company’s rights or obligations under any of the
agreements described below. Further, creditors of New PE Holdco do not have recourse to the Company. Since its acquisition, the Company has
not provided any additional support to New PE Holdco beyond the terms of the agreements described below.

The Company, directly or through one of its subsidiaries, has entered into the management and marketing agreements described below.

F-16

 
 
 
   
   
   
   
   
 
   
  
   
   
   
   
   
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Asset Management Agreement – The Company entered into an Asset Management Agreement (“AMA”) with the Plant Owners under which the
Company agreed to operate and maintain the Pacific Ethanol Plants on behalf of the Plant Owners. These services generally include, but are not
limited to, administering the Plant Owners’ compliance with their credit agreements and performing billing, collection, record keeping and other
administrative  and  ministerial  tasks.  The  Company  agreed  to  supply  all  labor  and  personnel  required  to  perform  its  services  under  the  AMA,
including the labor and personnel required to operate and maintain the production facilities.

The  costs  and  expenses  associated  with  the  Company’s  provision  of  services  under  the  AMA  are  prefunded  by  the  Plant  Owners  under  a
preapproved  budget.  The  Company’s  obligation  to  provide  services  is  limited  to  the  extent  there  are  sufficient  funds  advanced  by  the  Plant
Owners to cover the associated costs and expenses.

As  compensation  for  providing  the  services  under  the  AMA,  the  Company  is  paid  $75,000  per  month  for  each  production  facility  that  is
operational  and  $40,000  per  month  for  each  production  facility  that  is  idled.  In  addition  to  the  monthly  fee,  if  during  any  six-month  period
(measured  on  September  30  and  March  31  of  each  year  commencing  March  31,  2011)  a  production  facility  has  annualized  earnings  before
interest, income taxes, depreciation and amortization (“EBITDA”) per gallon of operating capacity of $0.20 or more, the Company will be paid a
performance bonus equal to 3% of the increment by which EBITDA exceeds such amount. The aggregate performance bonus for all plants is
capped at $2.2 million for each six-month period. The performance bonus is to be reduced by 25% if all production facilities then operating do
not operate at a minimum average yield of 2.70 gallons of denatured ethanol per bushel of corn. In addition, no performance bonus is to be paid if
there is a default or event of default under the Plant Owners’ credit agreement resulting from their failure to pay any amounts then due and owing.
The AMA also provides the Company with an incentive fee upon any sale of a production facility to the extent the sales price is above $0.60 per
gallon of annual capacity. To date, no such bonuses have been earned by the Company.

The AMA had an initial term of six months and successive six-month renewal periods at the option of the Plant Owners. In addition to typical
conditions  for  a  party  to  terminate  the  agreement  prior  to  its  expiration,  the  Company  may  terminate  the  AMA,  and  the  Plant  Owners  may
terminate the AMA with respect to any facility, at any time by providing at least 60 days prior notice of such termination. On June 30, 2011, the
AMA was amended and extended for one year.

The Company recorded revenues and New PE Holdco recorded costs of approximately $3,468,000 and $778,000, related to the AMA for the
years ended December 31, 2011 and 2010, respectively, during which New PE Holdco’s financial results were consolidated with the Company’s
financial results. As such, these amounts have been eliminated upon consolidation.

Ethanol Marketing Agreements – The Company entered into separate ethanol marketing agreements with each of the three Plant Owners whose
facilities are operating, which granted it the exclusive right to purchase, market and sell the ethanol produced at those facilities. Under the terms of
the  ethanol  marketing  agreements, within ten days after delivering ethanol to the Company, an amount is paid to the Company equal to (i) the
estimated  purchase  price  payable  by  the  third-party  purchaser  of  the  ethanol,  minus  (ii)  the  estimated  amount  of  transportation  costs  to  be
incurred, minus (iii) the estimated incentive fee payable to the Company, which equals 1% of the aggregate third-party purchase price. Each of the
ethanol marketing agreements had an initial term of one year and successive one year renewal periods at the option of the individual Plant Owner.
On June 30, 2011, all ethanol marketing agreements were amended and extended for one year. In addition, the price to be paid was amended to
include a marketing fee collar of not less than $0.015 per gallon and not more than $0.0225 per gallon.

The Company recorded revenues and New PE Holdco recorded costs of approximately $3,708,000 and $623,000 related to the ethanol marketing
agreements for the years ended December 31, 2011 and 2010, respectively, for the period during which New PE Holdco was consolidated with
the Company. These amounts were eliminated upon consolidation.

F-17

 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Corn Procurement and Handling Agreements – The Company entered into separate corn procurement and handling agreements with each of the
three Plant Owners whose facilities are operating. Under the terms of the corn procurement and handling agreements, each facility appointed the
Company  as  its  exclusive  agent  to  solicit,  negotiate,  enter  into  and  administer,  on  its  behalf,  corn  supply  arrangements  to  procure  the  corn
necessary  to  operate  its  facility.  The  Company  also  provides  grain  handling  services  including,  but  not  limited  to,  receiving,  unloading  and
conveying corn into the facility’s storage and, in the case of whole corn delivered, processing and hammering the whole corn.

The Company was to receive a fee of $0.50 per ton of corn delivered to each facility as consideration for its procurement services and a fee of
$1.50  per  ton  of  corn  delivered  as  consideration  for  its  grain  handling  services,  each  payable  monthly.  The  Company  agreed  to  enter  into  an
agreement  guaranteeing  the  performance  of  its  obligations  under  the  corn  procurement  and  handling  agreement  upon  the  request  of  a  Plant
Owner. Each corn procurement and handling agreement had an initial term of one year and successive one year renewal periods at the option of
the  individual  Plant  Owner.  On  June  30,  2011,  all  corn  procurement  and  handling  agreements  were  amended  and  extended  for  one  year.  In
addition, the corn procurement and handling fee was changed to $0.045 per bushel of corn.

The  Company  recorded  revenues  and  New  PE  Holdco  recorded  costs  of  approximately  $2,758,000  and  $571,000,  related  to  the  corn
procurement  and  handling  agreements  for  the  years  ended  December  31,  2011  and  2010,  respectively,  for  the  period  during  which  New  PE
Holdco was consolidated with the Company. These amounts were eliminated upon consolidation.

Distillers Grains Marketing Agreements – The Company entered into separate distillers grains marketing agreements with each of the three Plant
Owners  whose  facilities  are  operating,  which  grant  the  Company  the  exclusive  right  to  market,  purchase  and  sell  the  WDG  produced  at  each
facility. Under the terms of the distillers grains marketing agreements, within ten days after a Plant Owner delivers WDG to the Company, the
Plant Owner is paid an amount equal to (i) the estimated purchase price payable by the third-party purchaser of the WDG, minus (ii) the estimated
amount of transportation costs to be incurred, minus (iii) the estimated amount of fees and taxes payable to governmental authorities in connection
with the tonnage of WDG produced or marketed, minus (iv) the estimated incentive fee payable to the Company, which equals the greater of (a)
5%  of  the  aggregate  third-party  purchase  price,  and  (b)  $2.00  for  each  ton  of  WDG  sold  in  the  transaction. Each  distillers  grains  marketing
agreement had an initial term of one year and successive one year renewal periods at the option of the individual Plant Owner. On June 30, 2011,
all distillers grains marketing agreements were amended and extended for one year. In addition, the fee to be paid to the Company was amended
to include a collar of not less than $2.00 per ton and not more than $3.50 per ton.

The Company recorded revenues and New PE Holdco recorded costs of approximately $4,797,000 and $700,000, related to the distillers grain
marketing agreements for the years ended December 31, 2011 and 2010, respectively, for the period which New PE Holdco was consolidated
with the Company. These amounts were eliminated upon consolidation.

F-18

 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Assets  and  Liabilities  of  New  PE  Holdco  –  The  carrying  values  and  classification  of  assets  that  are  collateral  for  the  obligations  of  New  PE
Holdco at December 31, 2011 were as follows (in thousands):

Cash and cash equivalents
Other current assets
Property and equipment
Other assets

Total assets

Current liabilities
Long-term debt
Other liabilities

Total liabilities

  $

  $

  $

  $

2,070 
14,320 
155,523 
1,693 
173,606 

3,064 
73,256 
158 
76,478 

Deconsolidation  and  Sale  of  Front  Range  –  The  Company  purchased  a  42%  ownership  interest  in  Front  Range  on  October  17,  2006.  Upon
initial acquisition of the 42% interest in Front Range, the Company determined that it was Front Range’s primary beneficiary, and from that point
consolidated  the  financial  results  of  Front  Range.  Effective  January  1,  2010,  the  Company  determined  that  it  was  no  longer  the  primary
beneficiary of Front Range and deconsolidated the financial results of Front Range. In making this conclusion, the Company determined that the
Company did not have the power to direct the activities of Front Range that most significantly impacted its economic performance. Some of these
activities  included  efficient  management  and  operation  of  its  facility,  ethanol  sales,  procurement  of  feedstock,  sale  of  co-products  and
implementation of risk management strategies. Upon deconsolidation, the Company removed $62,617,000 of assets and $18,584,000 of liabilities
from the consolidated balance sheets and recorded a cumulative debit adjustment to retained earnings of $1,763,000.

Effective January 1, 2010, the Company accounted for its investment in Front Range under the equity method, with equity earnings recorded in
other income (expense), net in the consolidated statements of operations.

Sale  of  Front  Range  –  On  October  6,  2010,  the  Company  sold  its  entire  42%  ownership  interest  in  Front  Range  for  $18,500,000  in  cash,
resulting in a loss of $12,146,000.

3.

PROPERTY AND EQUIPMENT.

Property and equipment consisted of the following (in thousands):

Facilities and plant equipment
Land
Other equipment, vehicles and furniture
Construction in progress

Accumulated depreciation

F-19

December 31,

2011

2010

168,036    $
2,570     
4,918     
3,328     
178,852     
(19,235)    
159,617    $

166,229 
2,570 
4,635 
2,355 
175,789 
(6,813)
168,976 

  $

  $

 
 
 
   
   
   
   
   
 
 
 
 
 
 
 
 
 
 
 
   
 
   
   
   
 
   
   
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Depreciation expense, including idled facilities, was $11,724,000 and $8,536,000 for the years ended December 31, 2011 and 2010, respectively.
One  of  the  Pacific  Ethanol  Plants  was  idled  at  December  31,  2011  and  2010.  The  carrying  values  of  this  facility  totaled  $29,924,000  and
$32,000,000 at December 31, 2011 and 2010, respectively. The Company continues to depreciate these assets, resulting in depreciation expense
in the aggregate of $2,155,000 and $1,559,000 for the years ended December 31, 2011 and 2010, respectively.

4.

INTANGIBLE ASSETS.

Intangible assets consisted of the following (in thousands):

  Useful

Life
(Years)

December 31, 2011
    Accumulated     Net Book      
    Amortization    

Value

Gross

December 31, 2010
    Accumulated     Net Book  
    Amortization    

Value

Non-Amortizing:
Kinergy tradename
Amortizing:
Customer relationships
Pacific Ethanol
tradename

Total intangible assets,

net

10

2

    $

2,678    $

—    $

2,678    $

2,678    $

—    $

2,678 

4,741     

(3,211)    

1,530     

4,741     

(2,737)    

2,004 

800     

(550)    

250     

800     

(100)    

700 

     $

8,219    $

(3,761)   $

4,458    $

8,219    $

(2,837)   $

5,382 

Kinergy Tradename – The Company recorded a tradename valued at $2,678,000 in 2006 as part of its acquisition of Kinergy. The Company
determined that the Kinergy tradename has an indefinite life and therefore, rather than being amortized, will be tested annually for impairment.
The Company did not record any impairment on the Kinergy tradename for the years ended December 31, 2011 and 2010.

Customer  Relationships  –  The  Company  recorded  customer  relationships  valued  at  $4,741,000  as  part  of  its  acquisition  of  Kinergy.  The
Company has established a useful life of ten years for these customer relationships.

Pacific Ethanol Tradename – The Company recorded a tradename valued at $800,000 as part of its acquisition of its ownership interest in New
PE Holdco, which relates to its marketing and management agreements with Pacific Ethanol, Inc. The Company has established a useful life of
two years for this intangible asset.

Amortization  expense  associated  with  intangible  assets  totaled  $924,000  and  $574,000  for  the  years  ended  December  31,  2011  and  2010,
respectively. The weighted-average unamortized life of the intangible assets is 2.9 years.

The expected amortization expense relating to amortizable intangible assets in each of the remaining four years after December 31, 2011 are (in
thousands):

Years Ended
December 31,
2012
2013
2014
2015

Total

Amount

724 
474 
474 
108 
1,780 

 $

  $

F-20

 
 
 
 
 
 
 
   
   
 
 
 
     
 
 
   
     
 
   
     
     
     
     
     
     
 
   
   
     
      
      
      
      
      
  
   
     
   
     
   
 
 
 
 
 
 
 
 
  
  
   
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

5.

DERIVATIVES.

The business and activities of the Company expose it to a variety of market risks, including risks related to changes in commodity prices and
interest rates. The Company monitors and manages these financial exposures as an integral part of its risk management program. This program
recognizes  the  unpredictability  of  financial  markets  and  seeks  to  reduce  the  potentially  adverse  effects  that  market  volatility  could  have  on
operating results.

Commodity Risk – Cash Flow Hedges – The Company uses derivative instruments to protect cash flows from fluctuations caused by volatility in
commodity prices for periods of up to twelve months in order to protect gross profit margins from potentially adverse effects of market and price
volatility on ethanol sale and purchase commitments where the prices are set at a future date and/or if the contracts specify a floating or index-
based price for ethanol. In addition, the Company hedges anticipated sales of ethanol to minimize its exposure to the potentially adverse effects of
price  volatility.  These  derivatives  may  be  designated  and  documented  as  cash  flow  hedges  and  effectiveness  is  evaluated  by  assessing  the
probability  of  the  anticipated  transactions  and  regressing  commodity  futures  prices  against  the  Company’s  purchase  and  sales  prices.
Ineffectiveness, which is defined as the degree to which the derivative does not offset the underlying exposure, is recognized immediately in cost
of goods sold. For the years ended December 31, 2011 and 2010, the Company did not designate any of its derivatives as cash flow hedges.

Commodity Risk – Non-Designated Hedges – The Company uses derivative instruments to lock in prices for certain amounts of corn and ethanol
by  entering  into  forward  contracts  for  those  commodities.  These  derivatives  are  not  designated  for  special  hedge  accounting  treatment.  The
changes  in  fair  value  of  these  contracts  are  recorded  on  the  balance  sheet  and  recognized  immediately  in  cost  of  goods  sold.  The  Company
recognized a gain of $96,000 and a loss of $178,000 as the change in the fair value of these contracts for the years ended December 31, 2011 and
2010,  respectively.  The  notional  balances  remaining  on  these  contracts  as  of  December  31,  2011  and  2010  were  $9,186,000  and  $237,000,
respectively.

Interest Rate Risk – The Company has historically used derivative instruments to minimize significant unanticipated income fluctuations that may
arise from rising variable interest rate costs associated with existing and anticipated borrowings. The Company purchased interest rate caps and
swaps to meet these objectives. During the year ended December 31, 2010, through both divesture of its investment and resulting deconsolidation
of Front Range, and the emergence of the Plant Owners from bankruptcy, all interest rate caps and swaps were removed from the Company’s
consolidated statement of position as of December 31, 2010.

These derivatives were, at times, designated and documented as cash flow hedges, with effectiveness evaluated by assessing the probability of
anticipated interest expense and regressing the historical value of the rates against the historical value in the existing and anticipated debt. The
Company recognized gains from undesignated hedges of $0 and $1,227,000 in interest expense, net, for the years ended December 31, 2011 and
2010, respectively. These gains resulted primarily from the Company’s efforts to restructure its indebtedness prior to the Plant Owners’ Chapter
11 Filings, therefore making it not probable that the related borrowings would be paid as designated. As such, the Company de-designated certain
of its interest rate caps and swaps.

F-21

 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Non Designated Derivative Instruments – The classification and amounts of the Company’s derivatives not designated as hedging instruments
are as follows (in thousands):

As of December 31, 2011

Assets

Liabilities

Type of Instrument

  Balance Sheet Location

Fair Value

    Balance Sheet Location

Fair Value

Commodity contracts

  Other current assets

 $
 $

244    Accrued liabilities
244     

 $
 $

500 
500 

As of December 31, 2010

Assets

Liabilities

Type of Instrument

  Balance Sheet Location

Fair Value

    Balance Sheet Location

Fair Value

Commodity contracts

  Other current assets

  $
  $

—    Accrued liabilities
—     

  $
  $

15 
15 

The  classification  and  amounts  of  the  Company’s  recognized  gains  (losses)  for  its  derivatives  not  designated  as  hedging  instruments  are  as
follow (in thousands):

Type of Instrument

  Statements of Operations Location

Commodity contracts

  Cost of goods sold

Type of Instrument

Commodity contracts
Interest rate contracts

  Statements of Operations Location

  Cost of goods sold
  Interest expense, net

F-22

Realized Gain (Loss)

  For the Years Ended December 31,

2011

2010

  $
  $

338    $
338    $

(163)
(163)

Unrealized Gain (Loss)

  For the Years Ended December 31,

2011

2010

  $

  $

(242)   $
—     
(242)   $

(15)
1,227 
1,212 

 
 
 
 
 
 
 
 
 
   
 
 
 
 
 
 
   
 
      
 
  
 
   
 
 
 
 
 
   
 
 
 
 
 
 
   
   
     
   
 
 
   
 
 
   
 
 
 
   
 
 
   
 
 
   
   
     
 
 
   
 
   
 
 
 
   
 
 
   
 
 
   
   
     
 
  
 
   
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

6.

DEBT.

Long-term debt is summarized in the following table (in thousands):

Kinergy operating line of credit
Notes payable to related parties
New PE Holdco term debt
New PE Holdco operating line of credit
Convertible notes, at fair value

Less current portion
Long-term debt

December 31,

2011

2010

20,432    $
750     
51,279     
21,978     
—     
94,439     
(750)    
93,689    $

13,474 
1,250 
51,279 
18,978 
38,108 
123,089 
(38,108)
84,981 

  $

  $

Kinergy Line of Credit – Kinergy has a working capital line of credit in an aggregate amount of up to $30,000,000, with an optional accordion
feature of an additional $5,000,000. The credit facility is based on Kinergy’s eligible accounts receivable and inventory levels, subject to certain
concentration reserves. The credit facility is subject to certain other sublimits, including as to inventory loan limits. Interest accrues under the line
of credit at a rate equal to (i) the three-month London Interbank Offered Rate (“LIBOR”), plus (ii) a specified applicable margin ranging between
3.50% and 4.50%. The applicable margin was 3.50% at December 31, 2011. The credit facility’s monthly unused line fee is 0.50% of the amount
by which the maximum credit under the facility exceeds the average daily principal balance. Kinergy is also required to pay customary fees and
expenses associated with the credit facility and issuances of letters of credit. In addition, Kinergy is responsible for a $3,000 monthly servicing
fee. Payments that may be made by Kinergy to the Company as reimbursement for management and other services provided by the Company to
Kinergy  are  limited  to  $800,000  per  fiscal  quarter  in  2012  and  $850,000  per  fiscal  quarter  in  2013.  Kinergy  is  required  to  meet  specified
EBITDA  and  fixed  coverage  ratio  financial  covenants  under  the  credit  facility,  as  amended,  and  is  prohibited  from  incurring  any  additional
indebtedness (other than specific intercompany indebtedness) or making any capital expenditures in excess of $100,000 absent the lender’s prior
consent. The Company believes it is in compliance with these covenants. Kinergy’s obligations under the credit facility are secured by a first-
priority security interest in all of its assets in favor of the lender. The line of credit matures on December 31, 2013. The Company has guaranteed
all of Kinergy’s obligations under the line of credit. As of December 31, 2011, Kinergy had an available borrowing base under the credit facility
of $26,564,000 and an outstanding balance of $20,432,000.

Notes Payable to Related Parties – On March 31, 2009, the Company’s Chairman of the Board and its Chief Executive Officer provided funds in
an  aggregate  amount  of  $2,000,000  for  general  working  capital  purposes,  in  exchange  for  two  unsecured  promissory  notes  issued  by  the
Company. Interest on the unpaid principal amounts accrues at a rate of 8.00% per annum. All principal and accrued and unpaid interest on the
promissory notes was initially due and payable in March 2010. On October 29, 2010, the Company paid all accrued interest and $750,000 in
principal under these notes. On November 30, 2011, the Company paid $500,000 in principal under these notes. The Company recorded interest
under these notes of approximately $97,000 and $149,000 for the years ended December 31, 2011 and 2010, respectively. As of December 31,
2011, the remaining amount of $750,000 was due and payable on the extended maturity date of March 31, 2012. On March 7, 2012, the maturity
date was further extended to March 31, 2013.

F-23

 
 
 
 
 
 
 
 
 
 
   
 
   
   
   
   
 
   
   
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

New PE Holdco Term Debt and Operating Line of Credit – On the Effective Date, approximately $294,478,000 in prepetition and post petition
secured indebtedness of the Plant Owners was restructured under a Credit Agreement entered into on June 25, 2010 among the Plant Owners, as
borrowers, and various lenders. Under the Plan, the Plant Owners’ existing prepetition and post petition secured indebtedness of approximately
$294,478,000 was restructured to consist of approximately $50,000,000, plus accrued interest of $1,279,000, in three-year term loans and a new
three-year revolving credit facility of up to $35,000,000 to fund working capital requirements of New PE Holdco. The term loan and revolving
credit facility require monthly interest payments at a floating rate equal to the three-month LIBOR or the Prime Rate of interest, as elected by the
borrower,  plus  10.0%.  At  December  31,  2011,  the  rate  was  approximately  13.25%.  Repayments  of  principal  are  based  on  available  free  cash
flow of the borrower, until maturity, when all principal amounts are due. The term loan and revolving credit facility represent permanent financing
and are collateralized by a perfected, first-priority security interest in all of the assets, including inventories and all rights, title and interest in all
tangible and intangible assets, of New PE Holdco. The creditors of New PE Holdco do not have recourse to the Company. As of December 31,
2011, New PE Holdco had an outstanding letter of credit of approximately $844,000, unused availability under the credit facility of $12,178,000
and an outstanding balance of $21,978,000.

Convertible Notes – On October 6, 2010, the Company raised $35,000,000 through the issuance and sale of $35,000,000 in principal amount of
secured  convertible  notes  (“Initial  Notes”)  and  warrants  (“Initial  2010  Warrants”)  to  purchase  an  aggregate  of  2,941,178  shares  of  the
Company’s common stock. On January 7, 2011, the Company issued $35,000,000 in principal amount of secured convertible notes (“January
Convertible  Notes”)  in  exchange  for  the  Initial  Notes  and  warrants  (“2010  Warrants”)  to  purchase  an  aggregate  of  2,941,178  shares  of  the
Company’s common stock in exchange for the Initial 2010 Warrants. The transactions contemplated by the exchange agreements were entered
into  to,  among  other  things,  clarify  previously  ambiguous  language  in  the  Initial  Notes  and  Initial  2010  Warrants,  provide  the  Company  with
additional time to meet its registration obligations and to add additional flexibility to the Company’s ability to incur indebtedness subordinated to
the January Convertible Notes. As discussed below, the January Convertible Notes were valued at fair value, and as such, these modifications
were reflected in the fair value adjustments for the period.

On June 30, 2011, the Company issued $23,750,000 in principal amount of secured convertible notes, reflecting the amount then outstanding
under the January Convertible Notes (“June Convertible Notes”) in exchange for the January Convertible Notes. The transactions contemplated
by the exchange agreements were entered into to, among other things, defer an upcoming installment payment, add one additional month to the
maturity  date  and  add  a  new  additional  conversion  price  option  as  described  further  below.  As  discussed  further  below,  the  June  Convertible
Notes are valued at fair value, and as such, these modifications are reflected in the fair value adjustments for the year ended December 31, 2011.

On August 3, 2011, under the terms of exchange agreements with the holders of the June Convertible Notes, the Company issued approximately
$17,170,000  in  principal  amount,  reflecting  the  amount  then  outstanding  under  the  June  Convertible  Notes,  of  secured  convertible  notes
(“Convertible Notes”) in exchange for the June Convertible Notes. The transactions contemplated by the exchange agreements were entered into
to, among other things, add three additional months to the maturity date, add a new additional conversion price option as described further below
and reduce the price failure threshold from $1.40 to $0.60. As discussed below, the Convertible Notes are valued at fair value, and as such, these
modifications are reflected in the fair value adjustments for the year ended December 31, 2011.

F-24

 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The Company was obligated to make amortization payments with respect to the principal amount of each of the convertible notes, beginning on
March 7, 2011 and then on the first trading day of each calendar month thereafter, except for the month of August, through the extended maturity
date of May 2012 (collectively, the “Installment Dates”).

On each Installment Date, the Company was to pay an amount of principal, as then determined under the convertible notes and any accrued and
unpaid  interest  (the  “Installment  Amount”).  The  Company  could  elect  to  pay  the  Installment  Amount  in  cash  or  shares  of  its  common  stock,
subject to the satisfaction of certain conditions.

If the Company elected to make all or part of an amortization payment in shares of its common stock, it was required to deliver to the holders of
the  convertible  notes  the  amount  of  shares  of  the  Company’s  common  stock  equal  to  the  portion  of  the  amount  being  paid  in  shares  of  the
Company’s common stock divided by the lesser of the then existing conversion price and 85% of the average of the volume weighted average
prices of the 5 lowest trading days during the 20 consecutive trading day period ending on the trading day immediately prior to the applicable
Installment Date.

All amounts due under the convertible notes were also convertible at any time, in whole or in part, at the option of the holders into shares of the
Company’s common stock at a specified conversion price.

The Company elected to account for the convertible notes using the fair value alternative in order to simplify its accounting and reporting of the
convertible notes. Accordingly, the Company adjusted as of each quarter the carrying value of the convertible notes to their fair value since their
initial issuance in October 2010, with such adjustments reflected in fair value adjustments on convertible debt and warrants in the statements of
operations.

The Company recorded income of $7,559,000 and expense of $11,736,000 for fair value adjustments for the years ended December 31, 2011
and 2010, respectively, for changes in fair value, which adjustments are attributed to a reduction in the principal balances and fluctuations in the
market value of the Company’s common stock during each quarterly period. There were no changes in fair value of the convertible notes due to a
change in the estimated credit risk of the instruments. See Note 13 for the Company’s fair value assumptions.

The following table summarizes the Installment Amounts and additional conversions by the note holders through their retirement on November
14, 2011 (in thousands):

Installment Amount – Q1 2011
Installment Amount – 5/2/2011
Installment Amount – 6/1/2011
Holder Conversions – Q2 2011
Installment Amount – 7/1/2011
Installment Amount – 9/1/2011
Holder Conversions – Q3 2011
Installment Amount – 10/3/2011
Installment Amount – 11/1/2011
Holder Conversions – Q4 2011

* Cash payments

Principal

Interest

Total

Common
Shares

  $

  $

3,500    $
3,500     
3,350     
900     
3,450     
283     

10,688 
929 
-- 
8,400     
35,000    $

1,263    $
383     
176     
49     
159     
144     
649     
64     
5     
397     
3,289    $

4,763 
3,883 
3,526 
949 
3,609 
427 
11,337 
993 
5 
8,797 
38,289     

1,148 
1,396 
1,563 
428 
3,313 
* 
27,144 
* 
* 
28,867 
63,859 

F-25

 
 
 
 
 
 
 
 
 
 
 
 
   
   
   
 
  
   
  
   
  
   
  
   
  
   
  
   
  
  
   
  
  
   
  
  
   
  
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Registration  Rights  Agreement –  In  connection  with  the  sale  of  the  Initial  Notes  (and  Convertible  Notes)  and  the  Initial  2010  Warrants,  the
Company entered into a registration rights agreement with all of the investors to file a registration statement on Form S-1 with the Securities and
Exchange Commission. In compliance with the Company's obligations under the registration rights agreement, as amended by the aforementioned
exchange agreements, the Company filed a registration statement on Form S-1 to register for resale by the investors 3,968,423 shares of common
stock underlying the Convertible Notes.

Interest Expense on Borrowings  –  Interest  expense  on  all  borrowings  discussed  above  was  $14,813,000  and  $6,261,000  for  the  years  ended
December 31, 2011 and 2010, respectively.

Long-term debt due in each of the next two years is as follows (in thousands):

Years Ended December 31,
2012
2013

Total

  $

  $

Amount

750 
93,689 
94,439 

7.

ACCOUNTING FOR EMERGENCE FROM BANKRUPTCY.

Gain on Bankruptcy Exit – On the Effective Date, the Company ceased to own the Plant Owners as they emerged from bankruptcy. As a result,
the Company removed the related assets of $175,070,000 and liabilities of $294,478,000 from its consolidated financial statements, resulting in a
net gain on bankruptcy exit of $119,408,000.

Reorganization  Costs  –  In  accordance  with  the  Financial  Accounting  Standards  Board’s  Accounting  Standards  Codification  852,
Reorganizations, revenues, expenses, realized gains and losses, and provisions for losses that can be directly associated with the reorganization
and  restructuring  of  the  business  must  be  reported  separately  as  reorganization  items  in  the  statements  of  operations.  During  the  year  ended
December  31,  2010,  the  Plant  Owners  recorded  professional  fees  and  other  organizational  costs  directly  related  to  the  reorganization  of
$4,153,000.

8.

INCOME TAXES.

The asset and liability method is used to account for income taxes. Under this method, deferred tax assets and liabilities are recognized for tax
credits  and  for  the  future  tax  consequences  attributable  to  differences  between  the  financial  statement  carrying  amounts  of  existing  assets  and
liabilities and their tax bases. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the
years  in  which  those  temporary  differences  are  expected  to  be  recovered  or  settled.  A  valuation  allowance  is  recorded  to  reduce  the  carrying
amounts of deferred tax assets unless it is more likely than not that those assets will be realized.

The Company files a consolidated federal income tax return. This return includes all corporate companies 80% or more owned by the Company
as well as the Company’s pro-rata share of taxable income from pass-through entities in which the Company holds an ownership interest. State
tax returns are filed on a consolidated, combined or separate basis depending on the applicable laws relating to the Company and its subsidiaries.

The Company recorded no provision for income taxes for the years ended December 31, 2011 and 2010.

F-26

 
 
 
 
 
 
 
 
   
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

A  reconciliation  of  the  differences  between  the  United  States  statutory  federal  income  tax  rate  and  the  effective  tax  rate  as  provided  in  the
consolidated statements of operations is as follows:

Statutory rate
State income taxes, net of federal benefit
Section 382 reduction to NOL carryover
Change in valuation allowance
Stock compensation
Other

Effective rate

Years Ended December 31,

2011

2010

(35.0%)    
(3.9)    
(3,827.9)    
3,849.0     
16.8     
1.0     
0.0%     

(35.0%)
(4.9)
— 
41.5 
(1.8)
0.2 
0.0% 

Deferred income taxes are provided using the asset and liability method to reflect temporary differences between the financial statement carrying
amounts and tax bases of assets and liabilities using presently enacted tax rates and laws. The components of deferred income taxes included in
the consolidated balance sheets were as follows (in thousands):

Deferred tax assets:

Net operating loss carryforward
Capital loss carryover
Stock-based compensation
Derivative instruments mark-to-market
Convertible notes and warrants
Other accrued liabilities
Fixed assets
Other

Total deferred tax assets

Deferred tax liabilities:
Investment in New PE Holdco
Intangibles
Fixed assets
Total deferred tax liabilities

Valuation allowance
Net deferred tax liabilities

Classified in balance sheet as:
Deferred income tax benefit (current assets)
Deferred income taxes (long-term liability)

F-27

December 31,

2011

2010

30,681    $
8,013     
417     
201     
—     
123     
157     
167     
39,759     

(3,792)    
(1,706)    
—     
(5,498)    

144,814 
7,180 
3,446 
— 
4,520 
231 
— 
279 
160,470 

(756)
(1,901)
(191)
(2,848)

(35,352)    
(1,091)   $

(158,713)
(1,091)

—    $
(1,091)    
(1,091)   $

— 
(1,091)
(1,091)

  $

  $

  $

  $

 
 
 
 
 
 
 
 
 
 
   
 
   
   
   
   
   
   
   
 
 
 
 
 
 
 
   
 
   
     
 
   
   
   
   
   
   
   
   
 
   
      
  
   
      
  
   
   
   
   
 
   
      
  
   
 
   
      
  
   
      
  
   
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

A portion of the Company’s net operating loss carryforwards will be subject to provisions of the tax law that limit the use of losses incurred by a
company prior to the date certain ownership changes occur. In April 2011, the Company experienced a change in ownership that initiated a new
limitation on the Company’s ability to use its net operating losses. The amount of the Company’s net operating loss carryforwards that would be
subject to these limitations was approximately $370,096,000 at December 31, 2011.

Due to the new limitation, a significant portion of these net operating loss carryforwards will expire regardless of whether the Company generates
future  taxable  income.  After  reducing  these  net  operating  loss  carryforwards  for  the  amount  which  will  expire,  the  Company  had  federal  net
operating  loss  carryforwards  of  approximately  $79,605,000  and  $366,948,000,  and  state  net  operating  loss  carryforwards  of  approximately
$74,977,000 and $369,349,000, at December 31, 2011 and 2010, respectively.

These net operating loss carryforwards expire at various dates beginning in 2012. The deferred tax asset for the Company’s net operating loss
carryforwards at December 31, 2011 does not include $1,076,000 which relates to the tax benefits associated with warrants and non-statutory
options  exercised  by  employees,  members  of  the  board  and  others  under  the  various  incentive  plans.  These  tax  benefits  will  be  recognized  in
stockholders’ equity rather than in the statements of operations but not until the period in which these amounts decrease taxes payable.

In assessing whether the deferred tax assets are realizable, a more likely than not standard is applied. If it is determined that it is more likely than
not that deferred tax assets will not be realized, a valuation allowance must be established against the deferred tax assets. The ultimate realization
of deferred tax assets is dependent upon the generation of future taxable income during the periods in which the associated temporary differences
become  deductible.  Management  considers  the  scheduled  reversal  of  deferred  tax  liabilities,  projected  future  taxable  income  and  tax  planning
strategies in making this assessment.

A valuation allowance has been established in the amount of $35,352,000 and $158,713,000 at December 31, 2011 and 2010, respectively, based
on the Company’s assessment of the future realizability of  certain  deferred  tax  assets.  For  the  years  ended  December  31,  2011  and  2010,  the
Company recorded a decrease in the valuation allowance of $123,361,000 and $30,669,000, respectively. The valuation allowance on deferred
tax assets is related to future deductible temporary differences and net operating loss carryforwards (exclusive of net operating losses associated
with items recorded directly to equity) for which the Company has concluded it is more likely than not that these items will not be realized in the
ordinary course of operations.

At December 31, 2011, the Company had no increase or decrease in unrecognized income tax benefits for the year as a result of uncertain tax
positions  taken  in  a  prior  or  current  period.  There  was  no  accrued  interest  or  penalties  relating  to  tax  uncertainties  at  December  31,  2011.
Unrecognized tax benefits are not expected to increase or decrease within the next twelve months.

F-28

 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The Company is subject to income tax in the United States federal jurisdiction and various state jurisdictions and has identified its federal tax
return and tax returns in state jurisdictions below as “major” tax filings. These jurisdictions, along with the years still open to audit under the
applicable statutes of limitation, are as follows:

Jurisdiction

Tax Years

Federal
California
Colorado
Idaho
Nebraska
Oregon
Wisconsin

2008 – 2010
2007 – 2010
2007 – 2010
2008 – 2010
2008
2008 – 2010
2007 – 2008

However, because the Company had net operating losses and credits carried forward in several of the jurisdictions, including the United States
federal  and  California  jurisdictions,  certain  items  attributable  to  closed  tax  years  are  still  subject  to  adjustment  by  applicable  taxing  authorities
through an adjustment to tax attributes carried forward to open years.

9.

PREFERRED STOCK.

The Company has 6,734,835 undesignated shares of authorized and unissued preferred stock, which may be designated and issued in the future
on the authority of the Company’s Board of Directors. As of December 31, 2011, the Company had the following designated preferred stock:

Series  A  Preferred  Stock  –  The  Company  has  authorized  1,684,375  shares  of  Series  A  Cumulative  Redeemable  Convertible  Preferred  Stock
(“Series A Preferred Stock”), with none outstanding at December 31, 2011 and 2010. Shares of Series A Preferred Stock that are converted into
shares of the Company’s common stock revert to undesignated shares of authorized and unissued preferred stock.

Upon any issuance, the Series A Preferred Stock would rank senior in liquidation and dividend preferences to the Company’s common stock.
Holders of Series A Preferred Stock would be entitled to quarterly cumulative dividends payable in arrears in cash in an amount equal to 5% per
annum of the purchase price per share of the Series A Preferred Stock. The holders of the Series A Preferred Stock would have conversion rights
initially  equivalent  to  two  shares  of  common  stock  for  each  share  of  Series  A  Preferred  Stock,  subject  to  customary  antidilution  adjustments.
Certain specified issuances will not result in antidilution adjustments. The shares of Series A Preferred Stock would also be subject to forced
conversion upon the occurrence of a transaction that would result in an internal rate of return to the holders of the Series A Preferred Stock of
25%  or  more.  Accrued  but  unpaid  dividends  on  the  Series  A  Preferred  Stock  are  to  be  paid  in  cash  upon  any  conversion  of  the  Series  A
Preferred Stock.

The holders of Series A Preferred Stock would have a liquidation preference over the holders of the Company’s common stock equivalent to the
purchase price per share of the Series A Preferred Stock plus any accrued and unpaid dividends on the Series A Preferred Stock. A liquidation
would be deemed to occur upon the happening of customary events, including transfer of all or substantially all of the Company’s capital stock or
assets or a merger, consolidation, share exchange, reorganization or other transaction or series of related transaction, unless holders of 66 2/3% of
the Series A Preferred Stock vote affirmatively in favor of or otherwise consent to such transaction.

F-29

 
 
 
 
 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Series B Preferred Stock – The Company has authorized 1,580,790 shares of Series B Preferred Stock, with 926,942 and 1,455,924 outstanding
at December 31, 2011 and 2010, respectively. Shares of Series B Preferred Stock that are converted into shares of the Company’s common stock
revert to undesignated shares of authorized and unissued preferred stock.

The  Series  B  Preferred  Stock  ranks  senior  in  liquidation  and  dividend  preferences  to  the  Company’s  common  stock.  Holders  of  Series  B
Preferred Stock are entitled to quarterly cumulative dividends payable in arrears in cash in an amount equal to 7.00% per annum of the purchase
price per share of the Series B Preferred Stock; however, subject to the provisions of the Letter Agreement described below, such dividends may,
at the option of the Company, be paid in additional shares of Series B Preferred Stock based initially on the liquidation value of the Series B
Preferred Stock. The holders of Series B Preferred Stock have a liquidation preference over the holders of the Company’s common stock initially
equivalent  to  $19.50  per  share  of  the  Series  B  Preferred  Stock  plus  any  accrued  and  unpaid  dividends  on  the  Series  B  Preferred  Stock.  A
liquidation will be deemed to occur upon the happening of customary events, including the transfer of all or substantially all of the capital stock or
assets  of  the  Company  or  a  merger,  consolidation,  share  exchange,  reorganization  or  other  transaction  or  series  of  related  transaction,  unless
holders of 66 2/3% of the Series B Preferred Stock vote affirmatively in favor of or otherwise consent that such transaction shall not be treated as
a liquidation. The Company believes that such liquidation events are within its control and therefore has classified the Series B Preferred Stock in
stockholders’ equity.

The holders of the Series B Preferred Stock have conversion rights initially equivalent to 0.43 shares of common stock for each share of Series B
Preferred Stock. The conversion ratio is subject to customary antidilution adjustments. In addition, antidilution adjustments are to occur in the
event  that  the  Company  issues  equity  securities,  including  derivative  securities  convertible  into  equity  securities  (on  an  as-converted  or  as-
exercised  basis),  at  a  price  less  than  the  conversion  price  then  in  effect.  The  shares  of  Series  B  Preferred  Stock  are  also  subject  to  forced
conversion upon the occurrence of a transaction that would result in an internal rate of return to the holders of the Series B Preferred Stock of
25% or more. The forced conversion is to be based upon the conversion ratio as last adjusted. Accrued but unpaid dividends on the Series B
Preferred Stock are to be paid in cash upon any conversion of the Series B Preferred Stock.

The holders of Series B Preferred Stock vote together as a single class with the holders of the Company’s common stock on all actions to be
taken by the Company’s stockholders. Each share of Series B Preferred Stock entitles the holder to three votes on all matters to be voted on by
the  stockholders  of  the  Company.  Notwithstanding  the  foregoing,  the  holders  of  Series  B  Preferred  Stock  are  afforded  numerous  customary
protective provisions with respect to certain actions that may only be approved by holders of a majority of the shares of Series B Preferred Stock.

In 2008, the Company entered into Letter Agreements with Lyles United LLC (“Lyles United”) and other purchasers under which the Company
expressly waived its rights under the Certificate of Designations relating to the Series B Preferred Stock to make dividend payments in additional
shares of Series B Preferred Stock in lieu of cash dividend payments without the prior written consent of Lyles United and the other purchasers.

F-30

 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Registration  Rights  Agreement –  In  connection  with  the  sale  of  its  Series  B  Preferred  Stock,  the  Company  entered  into  a  registration  rights
agreement  with  Lyles  United.  The  registration  rights  agreement  is  to  be  effective  until  the  holders  of  the  Series  B  Preferred  Stock,  and  their
affiliates, as a group, own less than 10% for each of the series issued, including common stock into which such Series B Preferred Stock has
been converted. The registration rights agreement provides that holders of a majority of the Series B Preferred Stock, including common stock
into  which  such  Series  B  Preferred  Stock  has  been  converted,  may  demand  and  cause  the  Company  to  register  on  their  behalf  the  shares  of
common stock issued, issuable or that may be issuable upon conversion of the Preferred Stock and as payment of dividends thereon, and upon
exercise of the related warrants (collectively, the “Registrable Securities”). The Company is required to keep such registration statement effective
until  such  time  as  all  of  the  Registrable  Securities  are  sold  or  until  such  holders  may  avail  themselves  of  Rule  144  for  sales  of  Registrable
Securities without registration under the Securities Act of 1933, as amended. The holders are entitled to two demand registrations on Form S-1
and  unlimited  demand  registrations  on  Form  S-3;  provided,  however,  that  the  Company  is  not  obligated  to  effect  more  than  one  demand
registration  on  Form  S-3  in  any  calendar  year.  In  addition  to  the  demand  registration  rights  afforded  the  holders  under  the  registration  rights
agreement,  the  holders  are  entitled  to  unlimited  “piggyback”  registration  rights.  These  rights  entitle  the  holders  who  so  elect  to  be  included  in
registration  statements  to  be  filed  by  the  Company  with  respect  to  other  registrations  of  equity  securities.  The  Company  is  responsible  for  all
costs  of  registration,  plus  reasonable  fees  of  one  legal  counsel  for  the  holders,  which  fees  are  not  to  exceed  $25,000  per  registration.  The
registration  rights  agreement  includes  customary  representations  and  warranties  on  the  part  of  both  the  Company  and  the  holders  and  other
customary terms and conditions.

The Company recorded preferred stock dividends of $1,265,000 and $2,847,000 for the years ended December 31, 2011 and 2010, respectively.
As of December 31, 2011, the Company had accrued and unpaid dividends of $7,315,000.

10.

COMMON STOCK AND WARRANTS.

Private  Placement –  On  December  13,  2011,  the  Company  raised  $7,364,000,  net  of  $642,000  of  issuance  costs,  through  the  issuance  of
7,625,000 shares of common stock and warrants to purchase an aggregate of 4,956,250 shares of common stock (“2011 Warrants”). The 2011
Warrants  are  immediately  exercisable  and  entitle  the  holders  of  the  2011  Warrants  to  purchase  up  to  an  aggregate  of  4,956,250  shares  of  the
Company’s  common  stock  until  December  13,  2016  at  an  exercise  price  of  $1.50  per  share  (“2011  Warrant  Exercise  Price”),  which  price  is
subject to adjustment. The 2011 Warrants include both cash and cashless exercise provisions.

The  2011  Warrant  Exercise  Price  is  subject  to  adjustment  for  stock  splits,  combinations  or  similar  events,  and,  in  such  event,  the  number  of
shares issuable upon the exercise of the 2011 Warrants will also be adjusted so that the aggregate 2011 Warrant Exercise Price shall be the same
immediately before and immediately after the adjustment. In addition, the 2011 Warrant Exercise Price is also subject to a “weighted-average”
anti-dilution  adjustment  if  the  Company  issues  or  is  deemed  to  have  issued  securities  at  a  price  lower  than  the  then  applicable  2011  Warrant
Exercise Price.

The 2011 Warrants require payments to be made by the Company for failure to deliver the shares of common stock issuable upon exercise.

F-31

 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The 2011 Warrants may not be converted if, after giving effect to the conversion, the investor together with its affiliates would beneficially own
in excess of 4.99% of the Company’s outstanding shares of common stock. The blocker applicable to the exercise of the 2011 Warrants may be
raised or lowered to any other percentage not in excess of 9.99%, except that any increase will only be effective upon 61-days’ prior notice to the
Company.

If the Company issues options, convertible securities, warrants, stock, or similar securities to holders of its common stock, each holder of a 2011
Warrant has the right to acquire the same as if the holder had exercised its 2011 Warrant. The 2011 Warrants prohibit the Company from entering
into specified transactions involving a change of control, unless the successor entity assumes all of the Company’s obligations under the 2011
Warrants under a written agreement.

The Company accounted for the net proceeds of the private placement by first allocating the fair value of the 2011 warrants to a liability and then
recorded the remaining amount to equity.

Registration Rights Agreement – In connection with the sale of the shares of common stock and the 2011 Warrants, the Company entered into a
registration rights agreement with all of the investors to file a registration statement on Form S-1 with the Securities and Exchange Commission
by December 23, 2011 for the resale by the purchasers of the 7,625,000 shares of common stock and the 4,956,250 shares of common stock
issuable upon exercise of the 2011 Warrants issued on December 13, 2011.

Subject to grace periods, the Company is required to keep the registration statement (and the prospectus contained in that registration statement
available for use) for resale by the investors on a delayed or continuous basis at then-prevailing market prices at all times until the earlier of (i) the
date  as  of  which  all  of  the  investors  may  sell  all  of  the  shares  of  common  stock  required  to  be  covered  by  the  registration  statement  without
restriction under Rule 144 under the Securities Act (including volume restrictions) and without the need for current public information required
by  Rule  144(c)(1),  if  applicable)  or  (ii)  the  date  on  which  the  investors  shall  have  sold  all  of  the  shares  of  common  stock  covered  by  the
registration statement.

The Company must pay registration delay payments of 2% of each investor’s initial investment per month if the registration statement ceases to
be effective prior to the expiration of deadlines provided for in the registration rights agreement. The initial registration statement became effective
by the stated deadline and the Company did not record any liability associated with any registration delay payments under the registration rights
agreement.

Convertible Note Warrants –  On  October  6,  2010,  as  part  of  the  Initial  Notes  issuance,  the  Company  issued  the  Initial  2010  Warrants  which
were  immediately  exercisable  and  entitled  the  holders  of  the  Initial  2010  Warrants  to  purchase  up  to  an  aggregate  of  2,941,178  shares  of  the
Company’s common stock until October 6, 2017 at an  original  exercise  price  of  $5.95  per  share,  which  price  was  subject  to  adjustment.  The
Initial 2010 Warrants were subsequently exchanged for the 2010 Warrants having substantially the same terms. The 2010 Warrants include both
cash and cashless exercise provisions. Upon the Company’s consummation of the private placement on December 13, 2011, the original exercise
price of the 2010 Warrants was reduced to $0.45 per share (“2010 Warrant Exercise Price”), which is also subject to adjustment.

F-32

 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The  2010  Warrant  Exercise  Price  is  subject  to  adjustment  for  stock  splits,  combinations  or  similar  events,  and,  in  such  event,  the  number  of
shares issuable upon the exercise of the 2010 Warrants will also be adjusted so that the aggregate 2010 Warrant Exercise Price shall be the same
immediately  before  and  immediately  after  the  adjustment.  In  addition,  the  2010  Warrant  Exercise  Price  is  also  subject  to  a  “full  ratchet”  anti-
dilution adjustment where if the Company issues or is deemed to have issued securities at a price lower than the then applicable 2010 Warrant
Exercise Price, the 2010 Warrant Exercise Price will immediately decline to equal the price at which the Company issues or is deemed to have
issued its common stock.

If the Company sells or issues any securities with “floating” conversion prices based on the market price of its common stock, a holder of a 2010
Warrant  has  the  right  to  substitute  the  “floating”  conversion  price  for  the  2010  Warrant  Exercise  Price  upon  exercise  of  all  or  part  the  2010
Warrant.

The 2010 Warrants require payments to be made by the Company for failure to deliver the shares of common stock issuable upon exercise.

The 2010 Warrants may not be converted if, after giving effect to the conversion, the investor together with its affiliates would beneficially own
in excess of 4.99% or 9.99% (which percentage has been established at the election of each investor) of the Company’s outstanding shares of
common stock. The blocker applicable to the exercise of the 2010 Warrants may be raised or lowered, subject to an advance notice period, to any
other percentage not in excess of 9.99%.

If the Company issues options, convertible securities, warrants, stock, or similar securities to holders of its common stock, each holder of a 2010
Warrant has the right to acquire the same as if the holder had exercised its 2010 Warrant. The 2010 Warrants prohibit the Company from entering
into  specified  transactions  involving  a  change  of  control,  unless  the  successor  entity  is  a  publicly  traded  corporation  that  assumes  all  of  the
Company’s  obligations  under  the  2010  Warrants  under  a  written  agreement  approved  by  all  of  the  holders  of  the  2010  Warrants  before  the
transaction is completed. When there is a transaction involving a permitted change of control, a holder of a 2010 Warrant will have the right to
force  the  Company  to  repurchase  the  holder’s  2010  Warrants  for  a  purchase  price  in  cash  equal  to  the  Black  Scholes  value  of  the  then
unexercised portion of the 2010 Warrants.

If at any time after the date the Company has initially satisfied certain specified conditions, and (i) its common stock trades at a price equal to or
greater than $14.84 per share for 20 trading days in any 30 consecutive trading day period (“Mandatory Exercise Measuring Period”), (ii) the
average  daily  dollar  trading  volume  of  the  Company’s  common  stock  for  each  trading  day  during  the  Mandatory  Exercise  Measuring
Period exceeds $250,000 per day, and (iii) all such conditions are then satisfied, the Company will have the right to require the holders of the
2010 Warrants to fully exercise all, but not less than all, of the 2010 Warrants (subject to the blocker).

In February 2012, certain holders of the 2010 Warrants  exercised  their  2010  Warrants  with  respect  to  252,101  shares  of  common  stock  on  a
cashless exercise basis, resulting in 172,269 net shares of common stock issued by the Company.

F-33

 
 
 
 
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Accounting for 2011 and 2010 Warrants – The Company has determined that both the 2011 Warrants and the 2010 Warrants did not meet the
conditions for classification in stockholders’ equity and as such, the Company has recorded them as a liability at fair value. The Company will
revalue them at each reporting period. Accordingly, the Company recorded fair value adjustments quarterly, with total fair value adjustments of
$4,451,000 and $1,727,000 for the years ended December 31, 2011 and 2010, respectively, which is largely attributed to warrant term shortening
and reduction in the market value of the Company’s common stock. See Note 13 for the Company’s fair value assumptions. As noted above, the
exercise  price  of  the  2010  Warrants  declined  to  $0.45  as  a  result  of  anti-dilution  adjustments  due  to  the  Company’s  December  2011  equity
financing. At that time, the Company recorded an aggregate $1,100,000 expense to fair value adjustments on convertible debt and warrants in its
consolidated statements of operations.

Other Warrant Issuances – In March 2008, the Company issued warrants to purchase an aggregate of 439,561 shares of common stock at an
exercise price of $49.00 per share, which expire in 2018. In May 2008, the Company issued warrants to purchase an aggregate of 63,189 shares
of common stock at an exercise price of $49.00 per share, which expire in 2018.

In May 2008, the Company issued warrants to purchase an aggregate of 428,573 shares of common stock at an exercise price  of  $49.70  per
share, which expire in 2013.

Warrant Summary – The following table summarizes warrant activity for the years ended December 31, 2011 and 2010 (number of shares in
thousands):

Balance at December 31, 2009
Warrants issued
Balance at December 31, 2010
Warrants issued
Warrants exercised
Balance at December 31, 2011

11.

STOCK-BASED COMPENSATION.

Number of
Shares

Price per
Share
931  $49.00 – $49.70   $
  $
2,941 
3,872  $0.45 – $49.70   $
  $
4,956 
(2,437)
  $
6,391  $0.45 – $49.70   $

$1.50
$0.45

$0.45

Weighted
Average
Exercise Price  
49.32 
0.45 
12.20 
1.50 
0.45 
8.39 

The Company has two equity incentive compensation plans: a 2004 Stock Option Plan and a 2006 Stock Incentive Plan.

2004  Stock  Option  Plan  –  The  2004  Stock  Option  Plan  authorized  the  issuance  of  incentive  stock  options  (“ISOs”)  and  non-qualified  stock
options  (“NQOs”)  to  the  Company’s  officers,  directors  or  key  employees  or  to  consultants  that  do  business  with  the  Company  for  up  to  an
aggregate of 357,143 shares of common stock. On September 7, 2006, the Company terminated the 2004 Stock Option Plan, except to the extent
of issued and outstanding options then existing under the plan. The Company had 11,429 stock options outstanding under its 2004 Stock Option
Plan at December 31, 2011 and 2010.

2006  Stock  Incentive  Plan  –  The  2006  Stock  Incentive  Plan  authorizes  the  issuance  of  options,  restricted  stock,  restricted  stock  units,  stock
appreciation rights, direct stock issuances and other stock-based awards to the Company’s officers, directors or key employees or to consultants
that do business with the Company for up to an aggregate of 1,214,285 shares of common stock.

F-34

 
 
 
 
 
 
 
 
 
 
   
   
   
   
   
   
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Stock Options – On August 1, 2011 and August 25, 2011, the Company granted options to purchase an aggregate of 193,000 and 16,000 shares
of  the  Company’s  common  stock  at  exercise  prices  of  $0.86  and  $0.35  per  share,  which  were  the  respective  closing  prices  per  share  of  the
Company’s common stock on the dates of grant, with estimated fair values of $0.44 and $0.18, respectively. The options vest as to 33% on April
2, 2012 and 33% on each of April 1, 2013 and April 1, 2014. The options expire in 10 years from the date of grant. Fair value was determined
using the Black Scholes Option Pricing Model. For the August 1, 2011 grants, the inputs to estimating fair value were: exercise price of $0.86;
estimated  life  of  5.0  years;  expected  volatility  of  56.7%;  and  risk  free  interest  rate  of  2.50%.  For  the  August  25,  2011  grants,  the  inputs  to
estimating fair value were: exercise price of $0.35; estimated life of 5.0 years; expected volatility of 56.7% and risk free interest rate of 2.50%.
The Company estimates expected volatility using peer companies within its industry.

Summaries of the status of Company’s stock option plans as of December 31, 2011 and 2010 and of changes in options outstanding under the
Company’s plans during those years are as follows (in thousands, except exercise prices):

Outstanding at beginning of year

Issued

Outstanding at end of year
Options exercisable at end of year

Years Ended December 31,

Number
of Shares

2011

Weighted
Average

Exercise Price    
57.82     
0.82     
3.78     
57.82     

11    $
209    $
220    $
11    $

Number
of Shares

2010

Weighted
Average
Exercise Price  
57.82 
— 
57.82 
57.82 

11    $
—     
11    $
11    $

Stock options outstanding as of December 31, 2011, were as follows (number of shares in thousands): 

Range of
Exercise Prices

Number
Outstanding

Options Outstanding
Weighted Average
Remaining
Contractual Life
(yrs)

Options Exercisable

Weighted Average
Exercise Price

Number
Exercisable

Weighted Average
Exercise Price

$
$

0.35-0.86     
57.75-58.10     

209     
11     

9.59    $
3.57    $

0.82     
57.82     

—     
11    $

— 
57.82 

The options outstanding at December 31, 2011 and 2010 had intrinsic values of $50,000 and $0, respectively.

F-35

 
 
 
 
 
 
 
 
 
 
   
 
 
 
   
   
   
   
   
   
 
 
 
   
   
 
   
   
   
   
   
 
 
     
     
     
     
     
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Restricted Stock – The Company grants to certain employees and directors shares of restricted stock under its 2006 Stock Incentive Plan pursuant
to restricted stock agreements. A summary of unvested restricted stock activity is as follows (shares in thousands):

Unvested at December 31, 2009
Issued
Vested
Canceled
Unvested at December 31, 2010
Issued
Vested
Canceled
Unvested at December 31, 2011

Number of
Shares

Weighted
Average
Grant Date
Fair Value

40    $
585    $
(145)   $
(11)   $
469    $
264    $
(251)   $
(9)   $
473    $

56.63 
8.40 
14.91 
45.64 
9.66 
0.86 
10.56 
9.70 
4.27 

Stock-based compensation expense related to employee and non-employee stock grants and options recognized in income were as follows (in
thousands):

Employees
Non-employees
Total stock-based compensation expense

Years Ended December 31,
2010

2011

  $

  $

1,522    $
756     
2,278    $

1,895 
576 
2,471 

At December 31, 2011, the total compensation cost related to unvested awards which had not been recognized was $2,111,000 and the associated
weighted-average period over which the compensation cost attributable to those unvested awards would be recognized was 3.54 years.

12.

COMMITMENTS AND CONTINGENCIES.

Commitments – The following is a description of significant commitments at December 31, 2011:

Operating Leases – Future minimum lease payments required by non-cancelable operating leases in effect at December 31, 2011 are as follows
(in thousands):

Years Ended
December 31,
2012
2013
2014
2015
2016
Thereafter
Total

Amount

1,474 
1,196 
735 
747 
701 
3,820 
8,673 

  $

  $

Total rent expense during the years ended December 31, 2011 and 2010 was $2,300,000 and $1,598,000, respectively.

F-36

 
 
 
 
   
 
   
   
   
   
   
   
   
   
   
 
 
 
 
 
 
 
   
 
   
 
 
 
 
 
 
 
   
   
   
   
   
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Sales Commitments – At December 31, 2011, the Company had entered into sales contracts with its major customers to sell certain quantities of
ethanol, WDG and syrup. These sales contracts will be completed throughout 2012. The volumes indicated in the indexed price contracts table
will be sold at publicly-indexed sales prices determined by market prices in effect on their respective transaction dates (in thousands):

Ethanol
WDG and syrup

Total

Ethanol (gallons)
WDG and syrup (tons)

Fixed-Price
Contracts

  $

 $

2,609 
1,662 
4,271 

Indexed-Price
Contracts
(Volume)

113,575 
108 

Purchase Commitments – At December 31, 2011, the Company had fixed-price purchase contracts with its suppliers to purchase $17,329,000 of
ethanol and indexed-price purchase contracts with its suppliers to purchase 9,138,000 gallons of ethanol. These purchase commitments will be
satisfied throughout 2012. 

Contingencies – The following is a description of significant contingencies at December 31, 2011:

Litigation – General – The Company is subject to various claims and contingencies in the ordinary course of its business, including those related
to litigation, business transactions, employee-related matters, and others. When the Company is aware of a claim or potential claim, it assesses the
likelihood of any loss or exposure. If it is probable that a loss will result and the amount of the loss can be reasonably estimated, the Company
will record a liability for the loss. If the loss is not probable or the amount of the loss cannot be reasonably estimated, the Company discloses the
claim if the likelihood of a potential loss is reasonably possible and the amount involved could be material. While there can be no assurances, the
Company does not expect that any of its pending legal proceedings will have a material financial impact on the Company’s operating results.

Litigation – Barry Spiegel  –  In  2005,  Barry  J.  Spiegel,  a  former  shareholder  and  director  of  Accessity  Corp.,  filed  a  complaint  in  the  Circuit
Court  of  the  17th  Judicial  District  in  and  for  Broward  County,  Florida  (Case  No.  05018512,  the  “State  Court  Action”),  against  Barry  Siegel,
Philip Kart, Kenneth Friedman and Bruce Udell. Messrs. Udell and Friedman are former directors of Accessity and Pacific Ethanol. Mr. Kart is a
former executive officer of Accessity and Pacific Ethanol. Mr. Siegel is a former director and former executive officer of Accessity and Pacific
Ethanol. Mr. Spiegel voluntarily dismissed his case in 2007 but later renewed his case in 2009 and added as additional defendants PEI California,
Pacific Ethanol, William L. Jones, Neil M. Koehler and Ryan W. Turner. Messrs. Jones and Turner are directors of Pacific Ethanol. Mr. Turner
is a former officer of Pacific Ethanol. Mr. Koehler is a director and officer of Pacific Ethanol.

F-37

 
 
 
 
 
 
  
 
 
 
   
   
 
 
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

In 2006, Mr. Spiegel filed a complaint in the United States District Court for the Southern District of Florida (Case No. 06-61848, the “Federal
Court Action”), against the foregoing individual defendants and Pacific Ethanol.

The State and Federal Court Actions alleged numerous claims and related to a share exchange transaction completed in 2005 among Accessity
and the owners of each of Kinergy, ReEnergy, LLC and PEI California. The State Court Action sought approximately $22.0 million in damages.
The Federal Court Action sought approximately $15.0 million in damages.

After discovery, various motions and other pre-trial proceedings, on November 9, 2011, the Company and parties to the Spiegel cases entered
into  a  confidential  settlement  agreement  to  settle  all  matters  relating  to  the  State  Court  Action  and  the  Federal  Court  Action.  The  settlement
agreement  became  effective  on  November  21,  2011,  whereupon  the  State  Court  Action  and  the  Federal  Court  Action  were  dismissed  with
prejudice.

13. 

FAIR VALUE MEASUREMENTS.

The fair value hierarchy prioritizes the inputs used in valuation techniques into three levels as follows:

·

·

·

Level 1 – Observable inputs – unadjusted quoted prices in active markets for identical assets and liabilities;

Level  2  –  Observable  inputs  other  than  quoted  prices  included  in  Level  1  that  are  observable  for  the  asset  or  liability  through
corroboration with market data; and

Level  3  –  Unobservable  inputs  –  includes  amounts  derived  from  valuation  models  where  one  or  more  significant  inputs  are
unobservable. For fair value measurements using significant unobservable inputs, a description of the inputs and the information
used to develop the inputs is required along with a reconciliation of Level 3 values from the prior reporting period.

Convertible Notes and 2010 Warrants – As discussed in Notes 6 and 10, the Company recorded the convertible notes and related warrants at fair
value and designated them as Level 3 on their issuance date.

The  convertible  notes  were  valued  using  a  combination  of  a  Monte  Carlo  Binomial  Lattice-Based  valuation  methodology  for  the  embedded
conversion  feature,  adjusted  for  marketability  restrictions,  combined  with  a  discounted  cash  flow  model  for  the  payment  stream  of  the  debt
instrument. Significant assumptions used in the valuation at both the issuance date and December 31, 2010 are as follows:

Assumptions
Conversion price
Volatility
Risk free interest rate
Term (years)
Marketability discount
Discount rate on plain debt

  $

October 6, 2010
5.95 
73.7%
0.24%
1.27 
32.0%
30.0%

  $

December 31, 2010
5.95 
68.4%
0.29%
1.03 
27.0%
30.0%

Based on the above, the Company estimated the fair value of the convertible notes to be $37,474,000 at October 6, 2010  and  $38,108,000  at
December 31, 2010. The Company continued estimating the fair value of the convertible notes quarterly until their retirement on November 14,
2011.

F-38

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
   
   
   
   
   
   
   
   
   
   
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The warrants were valued using a Monte Carlo Binomial Lattice-Based valuation methodology, adjusted for marketability restrictions. Significant
assumptions used in the valuations for the dates noted are as follows:

Assumptions
Strike price
Volatility
Risk free interest rate
Term (years)
Marketability discount

October 6, 2010
$5.95 
67.0%
1.77%
7.00 
50.4%

December 31, 2010
$5.95 
63.5%
2.71%
6.90 
$44.4%

Based on the above, the Company estimated the fair value of the warrants to be $7,445,000 at October 6, 2010 and $5,718,000 at December 31,
2010.

As discussed in Note 10, as a result of the Company’s private placement on December 13, 2011, the strike price of the 2010 Warrants reset. The
Company estimated the fair value of the 2010 Warrants on December 13, 2011 and December 31, 2011 as follows:

Assumptions
Strike price
Volatility
Risk free interest rate
Term (years)
Marketability discount

December 13, 2011
$0.45 
72.3%
1.13%
5.90 
50.2%

December 31, 2011
$0.45 
68.0%
1.09%
5.90 
47.4%

Based  on  the  above,  the  Company  estimated  the  fair  value  of  the  2010  Warrants  to  be  $1,394,000  at  December  13,  2011  and  $226,000  at
December 31, 2011.

The  2011  Warrants  were  valued  using  a  Monte  Carlo  Binomial  Lattice-Based  valuation  methodology,  adjusted  for  marketability  restrictions.
Significant assumptions used in the valuations for the dates noted are as follows:

Assumptions
Strike price
Volatility
Risk free interest rate
Term (years)
Marketability discount

December 13, 2011
$1.50 

December 31, 2011
$1.50 

72.3%
0.85%
5.00 
54.9%

68.0%
0.83%
4.96 
52.0%

Based  on  the  above,  the  Company  estimated  the  fair  value  of  the  2011  Warrants  to  be  $1,809,000  at  December  13,  2011  and  $1,695,000  at
December 31, 2011.

F-39

 
 
 
 
 
   
   
   
   
   
   
   
   
   
   
 
 
 
 
 
   
   
   
   
   
   
   
   
   
   
 
 
 
 
   
   
   
   
   
   
   
   
   
   
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Interest  Rate  Caps  and  Swaps  –  Prior  to  the  Effective  Date,  the  Company  classified  the  Plant  Owners’  interest  rate  caps  and  swaps  into  the
following levels depending on the inputs used to determine their fair values. The fair value of the interest rate caps were designated as Level 2
based on quoted prices on similar assets or liabilities in active markets. The fair values of the interest rate swaps were designated as Level 3 and
were based on a combination of observable inputs and material unobservable inputs.

The  Plant  Owners  had  five  pay-fixed-and-receive  variable  interest  rate  swaps  in  liability  positions  which  were  extinguished  as  part  of  the
emergence from bankruptcy. To reflect the Plant Owners’ financial condition and Chapter 11 Filings, a recovery rate of 40% was applied to that
value. Management elected the 40% recovery rate in the absence of any other company-specific information. As the recovery rate is a material
unobservable  input,  these  swaps  were  considered  Level  3.  On  June  29,  2010,  the  liability  balance  of  $1,628,000  was  removed  from  the
Company’s consolidated financial statements as discussed in Note 7.

Other Derivative Instruments – The Company’s other derivative instruments consist of commodity positions. The fair value of the commodity
positions are based on quoted prices on the commodity exchanges and are designated as Level 1.

The following table summarizes fair value measurements by level at December 31, 2011 (in thousands):

Assets:
Commodity contracts

Total Assets

Liabilities:
2011 Warrants(1)
2010 Warrants(1)
Commodity contracts(1)

Total Liabilities

Level 1

Level 2

Level 3

Total

  $
  $

  $

  $

244    $
244    $

—    $
—     
500     
500    $

—    $
—    $

—    $
—     
—     
—    $

—    $
—    $

1,695    $
226     
—     
1,921    $

244 
244 

1,695 
226 
500 
2,421 

(1)      Included in other liabilities in the consolidated balance sheets.

F-40

 
 
 
 
 
 
 
 
 
   
   
   
 
   
     
     
     
 
 
   
      
      
      
  
   
      
      
      
  
   
   
 
 
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

The following table summarizes fair value measurements by level at December 31, 2010 (in thousands):

Assets:
Commodity contracts

Total Assets

Liabilities:
Convertible notes
2010 Warrants(1)
Commodity contracts(1)

Total Liabilities

Level 1

Level 2

Level 3

Total

  $
  $

  $

  $

—    $
—    $

—    $
—     
15     
15    $

—    $
—    $

—    $
—     
—     
—    $

—    $
—    $

— 
— 

38,108    $
5,718     
—     
43,826    $

38,108 
5,718 
15 
43,841 

(1)      Included in other liabilities in the consolidated balance sheets.

For fair value measurements using significant unobservable inputs (Level 3), a description of the inputs and the information used to develop the
inputs is required along with a reconciliation of Level 3 values from the prior reporting period. The changes in the Company’s fair value of its
Level 3 inputs were as follows (in thousands):

Balance, December 31, 2009
Issuance of convertible notes and warrants
Gain recognized in bankruptcy exit
Adjustments to fair value for the period
Balance, December 31, 2010

Issuance of 2011 Warrants
Repayments of convertible notes
Exercises of 2010 Warrants
Adjustments to fair value for the period
Balance, December 31, 2011

  $

  $

  $

F-41

Convertible
Notes

    2010 Warrants     2011 Warrants    
—    $
7,445     
—     
(1,727)    
5,718    $

—    $
—     
—     
—     
—     

—    $
37,474     
—     
634     
38,108    $

—     
(35,000)    
—     
(3,108)    
—    $

—     
—     
(1,155)    
(4,337)    
226    $

1,809     
—     
—     
(114)    
1,695    $

Interest Rate
Swaps

(2,875)
— 
1,628 
1,247 
 — 

— 
— 
— 
— 
— 

 
 
 
 
 
   
   
   
 
   
     
     
     
 
 
   
      
      
      
  
   
      
      
      
  
   
   
 
 
 
 
 
 
   
   
   
   
   
   
   
 
PACIFIC ETHANOL, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

Reconciliation of Impact to Statements of Operations – The following reconciliation summarizes the initial amounts recognized for the issuance
of the convertible notes, 2010 Warrants and 2011 Warrants and subsequent amounts that are recorded in the statements of operations as fair value
adjustments (in thousands):

Issuance of $35.0 million on October 6, 2010
Write-off of issuance costs
Adjustments to fair value for the period
As of and for year ending December 31, 2010
Issuance of 2011 Warrants
Repayments of convertible notes
Exercises of 2010 Warrants
Adjustments to fair value for the period
As of and for year ending December 31, 2011

14.

RELATED PARTY TRANSACTIONS.

Balance Sheet

Convertible
Notes

    Warrants

Statements of
Operations
Fair Value
Gain (Loss)

  $

  $

  $

37,474    $
—     
634     
38,108    $

—     
(35,000)    
—     
(3,108)    
—    $

7,445    $
—     
(1,727)    
5,718    $

1,809     
—     
(1,155)    
(4,451)    
1,921    $

(9,919)
(2,910)
1,093 
(11,736)

— 
— 
— 
(7,559)
(7,559)

Preferred Dividends – The Company had accrued and unpaid dividends in respect of its Series B Preferred Stock of $7,315,000 and $6,050,000
as of December 31, 2011 and 2010, respectively.

Notes  Payable  to  Related  Parties  –  The  Company  had  notes  payable  to  its  Chairman  of  the  Board  and  its  Chief  Executive  Officer  totaling
$750,000 and $1,250,000 as of December 31, 2011 and 2010, respectively. On November 30, 2011, the Company paid $500,000 in principal
under these notes. On October 29, 2010, the Company paid all accrued interest and $750,000 in principal under these notes. On November 5,
2010, the Company entered into amendments to these notes, extending the maturity date to March 31, 2012. On March 7, 2012, the maturity date
was further extended to March 31, 2013.

Notes  Payable  to  Related  Party  –  In  November  2008,  the  Company  restructured  certain  construction  related  loans  of  $30,000,000  in  the
aggregate  with  Lyles  United  by  paying  all  accrued  and  unpaid  interest  thereon  and  issuing  an  amended  and  restated  promissory  note  in  the
principal amount of $30,000,000. The amended and restated promissory note was due March 15, 2009 and accrued interest at the Prime Rate of
interest, plus 3.00%.

In October 2008, upon completion of the Stockton facility, the Company converted final unpaid construction costs to an unsecured note payable.
The note payable was between the Company and Lyles Mechanical Co. in the principal amount of $1,500,000 and was due with accrued interest
on March 31, 2009. Interest accrued at the Prime Rate of interest, plus 2.00%.

In February 2009, the Company notified Lyles United and Lyles Mechanical Co. (collectively, “Lyles”) that it would not be able to pay off its
notes due March 15 and March 31, 2009 and as a result, entered into a forbearance agreement. Under the terms of the forbearance agreement,
Lyles agreed to forbear from exercising rights and remedies against the Company through April 30, 2009. These forbearances were not extended.

F-42

 
 
 
 
 
 
   
 
 
 
   
 
   
   
   
   
   
   
 
 
 
 
 
 
 
 
 
In March 2010, the Company announced agreements designed to satisfy its indebtedness to Lyles. Socius CG II, Ltd. (“Socius”) entered into
purchase  agreements  with  Lyles  under  which  Socius  would  purchase  claims  in  respect  of  the  Company’s  indebtedness  in  tranches  of  up  to
$5,000,000, which claims Socius would then settle in exchange for shares of the Company’s common stock. Each tranche was to be settled in
exchange for the Company’s common stock valued at a 20% discount to the volume weighted average price of the Company’s common stock
over a predetermined trading period, which ranged from five to 20 trading days, immediately following the date on which the shares were first
issued to Socius.

Under  this  arrangement,  the  Company  issued  shares  to  Socius  which  settled  outstanding  debt  previously  owed  to  Lyles  in  four  successive
transactions.  For  the  year  ended  December  31,  2010,  the  Company  issued  an  aggregate  of  3,441,000  shares  with  an  aggregate  fair  value  of
$21,159,000 in exchange for $19,000,000 in debt extinguishment, resulting in an aggregate loss of $2,159,000. The Company determined fair
value based on the closing price of its shares on the last day of the applicable trading period, which was the date the net shares to be issued were
determinable by the Company.

On October 6, 2010, the Company paid in full all remaining principal, accrued interest and fees owed to Lyles using the proceeds from the sale of
its interest in Front Range and the issuance and sale of the convertible notes and 2010 Warrants.

Consulting Agreement – Ryan Turner – In November 2009, the Company entered into a consulting agreement with Ryan W. Turner, who is the
son-in-law  of  the  Company’s  Chairman  of  the  Board,  at  $20,000  per  month  for  consulting  services  relating  to  the  Company’s  restructuring
efforts. The Company paid Mr. Turner an aggregate of $23,100 for the year ended December 31, 2010. As of December 31, 2010, the Company
had no outstanding accounts payable to Mr. Turner. The Company’s consulting relationship with Mr. Turner was terminated in connection with
his appointment to the Company’s Board of Directors in February 2010. Mr. Turner did not seek reelection in 2011 and is no longer a member of
the Company’s Board of Directors.

Consulting Agreement – Michael Kandris – On December 30, 2011, the Company entered into an Independent Contractor Services Agreement
with  Michael  Kandris,  a  member  of  the  Company’s  Board  of  Directors,  appointing  him  as  a  consultant  to  the  Company  with  supervisory
responsibility for ethanol plant operations, under the direction of the Company’s Chief Executive Officer. The agreement became effective as of
January 1, 2012. Mr. Kandris is to receive compensation as set forth in each statement of work. The current statement of work provides that Mr.
Kandris shall receive bi-weekly payments in the amount of  approximately  $8,500.  The  agreement  has  an  initial  term  of  one  year,  and  may  be
renewed by mutual agreement for successive one-year terms.

15.

PLANT OWNERS’ CONDENSED COMBINED FINANCIAL STATEMENTS.

Since  the  consolidated  financial  statements  of  the  Company  include  entities  other  than  the  Plant  Owners,  below  are  the  condensed  combined
financial statements of the Plant Owners for the periods included in these consolidated financial statements during the pendency of their Chapter
11 Filings. These condensed combined financial statements have been prepared, in all material respects, on the same basis as the consolidated
financial statements of the Company. The condensed combined financial statements of the Plant Owners during the pendency of their Chapter 11
Filings are as follows (unaudited, in thousands):

PACIFIC ETHANOL HOLDING CO. LLC AND SUBSIDIARIES
CONDENSED COMBINED STATEMENTS OF OPERATIONS
January 1, 2010 to June 29, 2010

Net sales
Cost of goods sold
Gross loss
Selling, general and administrative expenses
Loss from operations
Other expense, net
Loss before reorganization costs and gain from bankruptcy exit
Reorganization costs
Gain from bankruptcy exit
Net income

F-43

  $

  $

89,737 
98,140 
(8,403)
1,829 
(10,232)
(1,253)
(11,485)
(4,153)
119,408 
103,770 

 
 
 
 
 
 
 
 
 
   
 
   
   
   
   
   
   
   
   
 
 
 
PACIFIC ETHANOL HOLDING CO. LLC AND SUBSIDIARIES
CONDENSED COMBINED STATEMENTS OF CASH FLOWS
January 1, 2010 to June 29, 2010

Operating Activities:

Net income
Adjustments to reconcile net income to ash used in operating activities:

Gain on bankruptcy exit
Depreciation and amortization of intangibles
Gain on derivative instruments
Amortization of deferred financing costs

Changes in operating assets and liabilities:

Accounts receivable
Inventories
Prepaid expenses and other assets
Accounts payable and accrued expenses
Net cash used in operating activities

Investing Activities:

Additions to property and equipment
Net cash impact of bankruptcy exit

Net cash used in investing activities

Financing Activities:

Proceeds from borrowings under DIP financing
Net cash provided by financing activities

Net decrease in cash and cash equivalents
Cash and cash equivalents at beginning of period
Cash and cash equivalents at end of period

16.

SUBSEQUENT EVENTS.

  $

103,770 

(119,408)
5,064 
(1,206)
85 

(5,059)
2,948 
159 
6,839 
(6,808)

(310)
(1,301)
(1,611)

5,173 
5,173 
(3,246)
3,246 
— 

  $

  $

  $

  $
  $

  $

Warrant exercises – In February 2012, certain holders of the 2010 Warrants exercised their 2010 Warrants with respect to 252,101 shares of
common stock on a cashless exercise basis, resulting in 172,269 net shares of common stock issued by the Company.

Note payable extension  –  On  March  7,  2012,  the  Company  extended  the  maturity  date  of  its  outstanding  note  payable  to  its  Chief  Executive
Officer in the principal amount of $750,000 to March 31, 2013. No other terms were changed.

F-44

 
 
 
 
   
 
   
  
   
   
   
   
   
  
   
   
   
   
   
  
   
   
  
   
   
 
 
 
INDEX TO EXHIBITS

Where Located

Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date

Filed
Herewith

2.1

2.2

2.3

  Debtors’ Amended Joint Plan of
Reorganization Under Chapter 11 of the
Bankruptcy Code as filed with the United
States Bankruptcy Court for the District of
Delaware on April 16, 2010

  Findings of Fact, Conclusions of Law, and
Order Confirming Debtors’ Amended
Joint Plan of Reorganization Under
Chapter 11 of the Bankruptcy Code as
entered by the United States Bankruptcy
Court for the District of Delaware on June
8, 2010

  Call Option Agreement dated June 29,
2010 between the Registrant, New PE
Holdco LLC and certain Members

8-K

000-21467

   2.1

  06/11/2010

8-K

000-21467

   99.1

  06/11/2010

8-K

000-21467

   10.1

  07/06/2010

2.4

  Agreement for Purchase and Sale of Units

8-K

000-21467

   10.5

  09/28/2010

in New PE Holdco LLC dated
September 28, 2010 between the Registrant
and CS Candlewood Special Situations
Fund, L.P.

2.5

  Membership Interest Purchase Agreement
dated September 27, 2010, between Pacific
Ethanol California, Inc. and Daniel A.
Sanders

8-K

000-21467

   10.6

  09/28/2010

2.6

  Exhibit A to Membership Interest Purchase

S-1

  333-171612    2.5

  01/07/2011

2.7

2.8

2.9

Agreement dated September 27, 2010,
between Pacific Ethanol California, Inc.
and Daniel A. Sanders

  Agreement for Purchase and Sale of Units
in New PE Holdco LLC dated November
29, 2011 between the Registrant and
Pacific Ethanol Equity Holdings LLC

  Agreement for Purchase and Sale of Units
in New PE Holdco LLC dated December
8, 2011 between the Registrant and
Candlewood Special Situations Fund, L.P.

  Agreement for Purchase and Sale of Units
in New PE Holdco LLC dated December
9, 2011 between the Registrant and
Wexford Spectrum Investors LLC

8-K

000-21467

   10.1

  12/02/2011

S-1

  333-178685    2.8

  12/22/2011

S-1

  333-178685    2.9

  12/22/2011

43

 
 
 
   
 
 
 
 
 
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
   
 
 
 
Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date  

Filed
Herewith

Where Located

2.10

2.11

3.1

3.2

3.3

3.4

  Agreement for Purchase and Sale of Units
in New PE Holdco LLC dated December
9, 2011 between the Registrant and
Wexford Catalyst Investors LLC

  Agreement for Purchase and Sale of Units
in New PE Holdco LLC dated December
9, 2011 between the Registrant and
Debello Investors LLC

  Certificate of Incorporation

  Certificate of Amendment to Certificate of
Incorporation

  Certificate of Amendment to Certificate of
Incorporation

S-1

  333-178685    2.10

  12/22/2011

S-1

  333-178685    2.11

  12/22/2011

8-K

10-Q

000-21467

   3.1

  03/29/2005

000-21467

   3.4

  08/16/2010

8-K

000-21467

   3.1

  06/07/2011

  Certificate of Designations, Powers,

10-KSB

000-21467

   3.2

  04/14/2006

Preferences and Rights of the Series A
Cumulative Redeemable Convertible
Preferred Stock

3.5

  Certificate of Designations, Powers,

8-K

000-21467

   10.2

  03/27/2008

Preferences and Rights of the Series B
Cumulative Convertible Preferred Stock

3.6

10.1

10.2

10.3

10.4

10.5

10.6

10.7

10.8

10.9

  Bylaws of the Registrant

  2004 Stock Option Plan*

8-K

S-8

000-21467

   3.2

  03/29/2005

  333-123538    4.1

  03/24/2005

  Amended 1995 Incentive Stock Plan*

10-KSB

000-21467

   10.7

  03/31/2003

  First Amendment to 2004 Stock Option

8-K

000-21467

   10.3

  02/01/2006

Plan*

  2006 Stock Incentive Plan, as amended*

  Form of Employee Restricted Stock

Agreement*

  Form of Non-Employee Director
Restricted Stock Agreement*

  Amended and Restated Executive
Employment Agreement dated December
11, 2007 between the Registrant and Neil
M. Koehler*

  Amended and Restated Executive
Employment Agreement dated December
11, 2007 between the Registrant and
Christopher W. Wright*

  Amended and Restated Executive
Employment Agreement dated November
25, 2009 between the Registrant and Bryon
T. McGregor*

S-8

8-K

  333-176540    4.1

  08/29/2011

000-21467

   10.2

  10/10/2006

8-K

000-21467

   10.3

  10/10/2006

8-K

000-21467

   10.3

  12/17/2007

8-K

000-21467

   10.5

  12/17/2007

8-K

000-21467

   10.1

  11/27/2009

 
 
 
 
   
 
 
 
 
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
44

 
 
Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date  

Filed
Herewith

Where Located

10.10

10.11

10.12

10.13

10.14

  Independent Contractor Services
Agreement dated January 1, 2012 between
the Registrant and Michael D. Kandris*

  Form of Indemnity Agreement between the
Registrant and each of its Executive
Officers and Directors*

  Promissory Note dated March 30, 2009 by
the Registrant in favor of Neil M. Koehler*

  Amended and Restated Ethanol Purchase
and Sale Agreement dated August 9, 2006
between Kinergy Marketing, LLC and
Front Range Energy, LLC

  Amendment to Amended and Restated
Ethanol Purchase and Sale Agreement
dated October 17, 2006 between Kinergy
Marketing, LLC and Front Range Energy,
LLC

8-K

000-21467

   10.1

  01/05/2012

10-K

000-21467

   10.46

  03/31/2010

8-K

000-21467

   10.6

  04/02/2009

8-K

000-21467

   10.1

  08/15/2006

8-K

000-21467

   10.7

  10/23/2006

10.15

  Warrant dated March 27, 2008 issued by

8-K

000-21467

   10.3

  03/27/2008

the Registrant to Lyles United, LLC

10.16

  Registration Rights Agreement dated

8-K

000-21467

   10.4

  03/27/2008

March 27, 2008 between the Registrant
and Lyles United, LLC

10.17

  Letter Agreement dated March 27, 2008
between the Registrant and Lyles United,
LLC

8-K

000-21467

   10.5

  03/27/2008

10.18

  Form of Warrant dated May 22, 2008

8-K

000-21467

   10.2

  05/23/2008

issued by the Registrant

10.19

  Letter Agreement dated May 22, 2008

8-K

000-21467

   10.3

  05/23/2008

10.20

10.21

10.22

among the Registrant, Neil M. Koehler,
Bill Jones, Paul P. Koehler and Thomas D.
Koehler*

  Form of Warrant dated May 23, 2008
issued by the Registrant

  Loan and Security Agreement dated July
28, 2008 among Kinergy Marketing LLC,
the parties thereto from time to time as
Lenders and Wachovia Capital Finance
Corporation (Western)

  Guarantee dated July 28, 2008 by the
Registrant in favor of Wachovia Capital
Finance Corporation (Western) for and on
behalf of Lenders

8-K

000-21467

   10.5

  05/23/2008

8-K

000-21467

   10.1

  08/01/2008

8-K

000-21467

   10.2

  08/01/2008

45

 
 
 
 
   
 
 
 
 
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
 
 
Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date  

Filed
Herewith

Where Located

10.23

10.24

10.25

10.26

  Amendment and Waiver Agreement dated
May 17, 2009 among the Registrant,
Kinergy Marketing, LLC and Wachovia
Capital Finance Corporation (Western)

  Amendment No. 2 to Loan and Security
Agreement dated November 5, 2009
among the Registrant, Kinergy Marketing,
LLC and Wachovia Capital Finance
Corporation (Western)

  Amendment No. 3 to Loan and Security
Agreement dated September 22, 2010
among the Registrant, Kinergy Marketing
LLC and Wells Fargo Capital Finance,
LLC

  Amendment No. 4 to Loan and Security
Agreement dated October 27, 2010 among
the Registrant, Kinergy Marketing LLC
and Wells Fargo Capital Finance, LLC

8-K

000-21467

   10.1

  05/18/2009

10-Q

000-21467

   10.3

  11/09/2009

8-K

000-21467

   10.1

  09/22/2010

8-K

000-21467

   10.1

  10/27/2010

10.27

  Amendment No. 5 to Loan and Security

8-K

000-21467

   10.1

  12/15/2010

Agreement dated October 27, 2010 among
the Registrant, Kinergy Marketing LLC
and Wells Fargo Capital Finance, LLC

10.28

  Amendment No. 6 to Loan and Security

8-K

000-21467

   10.1

  06/13/2011

Agreement dated April 11, 2011 among the
Registrant, Kinergy Marketing LLC and
Wells Fargo Capital Finance, LLC

10.29

  Amendment No. 7 to Loan and Security

8-K

000-21467

   10.2

  06/13/2011

Agreement dated May 12, 2011 among the
Registrant, Kinergy Marketing LLC and
Wells Fargo Capital Finance, LLC

10.30

  Amendment No. 8 to Loan and Security

8-K

000-21467

   10.3

  06/13/2011

Agreement dated June 10, 2011 among the
Registrant, Kinergy Marketing LLC and
Wells Fargo Capital Finance, LLC

46

 
 
 
 
   
 
 
 
 
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
 
 
Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date  

Filed
Herewith

Where Located

10.31

10.32

10.33

10.34

  Amendment No. 9 to Loan and Security
Agreement dated December 31, 2011
among the Registrant, Kinergy Marketing
LLC and Wells Fargo Capital Finance,
LLC

  Second Amended and Restated Asset
Management Agreement dated June 30,
2011 among the Registrant, Pacific Ethanol
Holding Co. LLC, Pacific Ethanol Madera
LLC, Pacific Ethanol Columbia, LLC,
Pacific Ethanol Stockton, LLC and Pacific
Ethanol Magic Valley, LLC

  Form of Amended and Restated Ethanol
Marketing Agreement

  Form of Amended and Restated Corn
Procurement and Handling Agreement

8-K

000-21467

   10.1

  01/31/2012

8-K

000-21467

   10.1

  07/06/2011

8-K

000-21467

   10.2

  07/06/2011

8-K

000-21467

   10.4

  07/06/2011

10.35

  Form of Amended and Restated Distillers

8-K

000-21467

   10.5

  07/06/2011

Grains Marketing Agreement

10.36

  Securities Purchase Agreement dated

8-K

000-21467

   10.1

  09/28/2010

September 27, 2010 among the Registrant
and the investors identified therein

10.37

  Form of Registration Rights Agreement

8-K

000-21467

   10.4

  09/28/2010

dated October 6, 2010 among the
Registrant and the investors identified
therein

10.38

  Limited Liability Company Agreement of

10-K

000-21467

   10.34

  03/31/2011

New PE Holdco LLC

10.39

  Form of Amendment and Exchange
Agreement dated January 7, 2011

8-K

000-21467

   10.1

  01/07/2011

10.40

  Form of Warrant dated January 7, 2011

8-K

000-21467

   10.3

  01/07/2011

10.41

10.42

10.43

issued by the Registrant

  Securities Purchase Agreement dated
December 8, 2011 between the Registrant
and the investors identified therein

  Registration Rights Agreement dated
December 13, 2011 between the Registrant
and the investors identified therein

  Amendment No. 1 to Registration Rights
Agreement dated February 22, 2012
between the Registrant and the investors
identified therein

S-1

  333-178685    2.11

  12/22/2011

8-K

000-21467

   10.3

  12/09/2011

X

10.44

  Form of Warrant dated December 13, 2011
issued by the Registrant

8-K/A

000-21467

   10.2

  12/12/2011

 
 
 
 
   
 
 
 
 
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
   
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
   
   
   
   
 
 
   
   
   
   
   
   
 
 
   
 
   
   
   
   
   
   
 
 
47

 
Exhibit
Number  

Description

Form

  File Number  

Exhibit
Number

  Filing Date  

Filed
Herewith

Where Located

21.1

23.1

31.1

31.2

32.1

  Subsidiaries of the Registrant

10-K

  000-21467    21.1

  03/31/2011

  Consent of Independent Registered
Public Accounting Firm

  Certification Required by Rule 13a-
14(a) of the Securities Exchange Act
of 1934, as amended, as Adopted
Pursuant to Section 302 of the
Sarbanes-Oxley Act of 2002

  Certification Required by Rule 13a-
14(a) of the Securities Exchange Act
of 1934, as amended, as Adopted
Pursuant to Section 302 of the
Sarbanes-Oxley Act of 2002

  Certification of Chief Executive
Officer and Chief Financial Officer
Pursuant to 18 U.S.C. Section 1350,
as Adopted Pursuant to Section 906
of the Sarbanes-Oxley Act of 2002

X

X

X

X

(*)  A  contract,  compensatory  plan  or  arrangement  to  which  a  director  or  executive  officer  is  a  party  or  in  which  one  or  more  directors  or
executive officers are eligible to participate.

48

 
 
 
 
   
 
 
 
 
 
   
 
   
   
   
   
   
   
 
 
   
   
   
 
 
   
   
   
   
   
   
 
 
   
   
   
 
 
   
   
   
   
   
   
 
 
   
   
   
 
 
   
   
   
   
   
   
 
 
   
   
   
 
 
 
 
 
 
 
 
 
 
 
Pursuant to the requirements of Section 13 or 15(d) of the Securities Exchange Act of 1934, the registrant has duly caused this report to

be signed on its behalf by the undersigned, thereunto duly authorized on this 8th day of March, 2012.

SIGNATURES

PACIFIC ETHANOL, INC.

By: /s/ NEIL M. KOEHLER

Neil M. Koehler
President and Chief Executive Officer

Pursuant to the requirements of the Securities Exchange Act of 1934, this report has been signed below by the following persons on

behalf of the Registrant and in the capacities and on the dates indicated.

Signature

Title

Date

/s/ WILLIAM L. JONES

Chairman of the Board and Director

March 8, 2012

William L. Jones

/s/ NEIL M. KOEHLER

President, Chief Executive Officer (Principal Executive Officer)

March 8, 2012

Neil M. Koehler

and Director

/s/ BRYON T. MCGREGOR

Chief Financial Officer (Principal Financial and Accounting

March 8, 2012

Officer)

Bryon T. McGregor

/s/ TERRY L. STONE

Director

Terry L. Stone

/s/ JOHN L. PRINCE

Director

John L. Prince

/s/ DOUGLAS L. KIETA

Director

Douglas L. Kieta

/s/ LARRY D. LAYNE

Director

Larry D. Layne

/s/ MICHAEL D. KANDRIS

Director

Michael D. Kandris

49

March 8, 2012

March 8, 2012

March 8, 2012

March 8, 2012

March 8, 2012

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
EXHIBITS FILED WITH THIS REPORT

Exhibit
Number

10.43

23.1

31.1

31.2

32.1

Description

Amendment No. 1 to Registration Rights Agreement dated February 22, 2012 between the Registrant and the investors
identified therein

Consent of Independent Registered Public Accounting Firm

Certification Required by Rule 13a-14(a) of the Securities Exchange Act of 1934, as amended, as Adopted Pursuant to Section
302 of the Sarbanes-Oxley Act of 2002

Certification Required by Rule 13a-14(a) of the Securities Exchange Act of 1934, as amended, as Adopted Pursuant to Section
302 of the Sarbanes-Oxley Act of 2002

Certification of Chief Executive Officer and Chief Financial Officer Pursuant to 18 U.S.C. Section 1350, as Adopted Pursuant
to Section 906 of the Sarbanes-Oxley Act of 2002

50

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
EXHIBIT 10.43

AMENDMENT NO. 1 TO REGISTRATION RIGHTS AGREEMENT

THIS AMENDMENT NO. 1 TO REGISTRATION RIGHTS AGREEMENT (the “Amendment”) is entered into on February 22,
2012 by and among Pacific Ethanol, Inc., a Delaware corporation (the “Company”), and the undersigned investors (each, an “Investor” and
collectively, the “Investors”), each a party to that certain Registration Rights Agreement, dated December 13, 2011, by and among the Company
and the investors signatory thereto (the “Registration Rights Agreement”).  All capitalized terms used but not defined herein shall have the
meanings set forth in the Registration Rights Agreement.  This Amendment shall be effective when executed by the Required Holders.

R E C I T A L S

A.   The Company’s Amendment No. 1 to Registration Statement on Form S-1, File No. 333-178685 (the “Initial Registration

Statement”), covering the resale of the Registrable Securities was declared effective by the Securities and Exchange Commission on February
13, 2012.

B.   Pursuant to Section 3(r) of the Registration Rights Agreement, the Company will be subject to Registration Delay Payments if the

Initial Registration Statement is not effective during the thirty (30) Trading Day period immediately following February 13, 2012.

C.   The Company desires to file its Annual Report on Form 10-K for the year ended December 31, 2011 prior to the end of the thirty
(30) Trading Day period immediately following February 13, 2012, which filing may require the Company to file a post effective amendment to
the Registration Statement resulting in Registration Delay Payments.

D.   The Investors agree to amend the Registration Rights Agreement to shorten to the period of time following the Effective Date of the

Initial Registration Statement during which a Grade Period may not exist from thirty (30) Trading Days to fifteen (15) Trading Days.

E.   The Registration Rights Agreement may be amended with the written consent of the Company and the Required Holders.

NOW THEREFORE, in consideration of the foregoing recitals, the mutual covenants and agreements set forth in this Amendment, and

for other good and valuable consideration, the receipt and sufficiency of which are hereby acknowledged, the parties hereto agree as follows:

1.           Amendment.  On and after the date this Amendment is executed by the Company and Investors constituting the Required

Holders, clause (v) of Section 3(r) of the Registration Rights Agreement is amended to strike in its entirety the contents therein and replace the
same with the following: “(v) a Grace Period may not exist during the thirty (30) Trading Day period immediately following the Effective Date of
any Registration Statement, provided, however, that with respect to the initial Registration Statement (File No. 333-178685) declared effective by
the SEC on February 13, 2012, a Grace Period may not exist during the fifteen (15) Trading Day period immediately following February 13,
2012.

1

 
 
 
 
 
 
 
 
 
 
 
 
2.           Miscellaneous.

(a)           Entire Agreement.  This Amendment constitutes the entire agreement between the parties with respect to the subject

matter hereof and supersedes any prior understandings, agreements or representations by or between the parties, written or oral, to the extent they
relate in any way to the subject matter hereof.

(b)           Amendments and Waivers; Severability.  This Amendment may not be amended or modified, and no provisions

hereof may be waived, without the written consent of the Company and each of the undersigned Investors.  If any provision of this Amendment
is prohibited by law or otherwise determined to be invalid or unenforceable by a court of competent jurisdiction, the provision that would
otherwise be prohibited, invalid or unenforceable shall be deemed amended to apply to the broadest extent that it would be valid and enforceable,
and the invalidity or unenforceability of such provision shall not affect the validity of the remaining provisions of this Amendment so long as this
Amendment as so modified continues to express, without material change, the original intentions of the parties as to the subject matter hereof and
the prohibited nature, invalidity or unenforceability of the provision(s) in question does not substantially impair the respective expectations or
reciprocal obligations of the parties or the practical realization of the benefits that would otherwise be conferred upon the parties. The parties will
endeavor in good faith negotiations to replace the prohibited, invalid or unenforceable provision(s) with a valid provision(s), the effect of which
comes as close as possible to that of the prohibited, invalid or unenforceable provision(s).

(c)           Governing Law.  This Amendment shall be construed and enforced in accordance with, and all questions concerning

the construction, validity, interpretation and performance of this Amendment shall be governed by, the internal laws of the State of New York,
without giving effect to any choice of law or conflict of law provision or rule (whether of the State of New York or any other jurisdictions) that
would cause the application of the laws of any jurisdictions other than the State of New York.

(d)           Counterparts.  This Amendment may be executed, including by facsimile signature, in one or more counterparts, each

of which shall be deemed an original but all of which together will constitute one and the same instrument.

[signature pages follow]

2

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE COMPANY:      

PACIFIC ETHANOL, INC.

/s/ Christopher W. Wright

By:
Name: Christopher W. Wright
Title: Vice President & General Counsel

3

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Cranshire Capital Master Fund, Ltd.

/s/ Keith A. Goodman

By:
Name: Keith A. Goodman
Title: Authorized Signatory

4

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Freestone Advantage Partners II, LP

/s/ Keith A. Goodman

By:
Name: Keith A. Goodman
Title: Authorized Signatory

5

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Kingsbrook Opportunities Master Fund LP

By:

Kingsbrook Opportunities GPLLC,
As general partner

/s/ Adam J. Chill

By:
Name: Adam J. Chill
Title: Managing Member

6

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Haven Investments LLC

By:
Its:

Carpe Diem Capital Management LLC
Manager 

/s/ John Ziegelman

By:
Name: John Ziegelman
President
Title:

7

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Carpe Diem Opportunity Fund LP

By:
Its:

Carpe Diem Capital Management LLC
Investment Manager 

/s/ John Ziegelman

By:
Name: John Ziegelman
President
Title:

8

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
IN WITNESS WHEREOF, each Investor and the Company have caused their respective signature page to this Amendment to be

executed as of the date first written above.

THE INVESTORS:      

Capital Ventures International

/s/ Martin Kobinger

By:
Name: Martin Kobinger
Title:

Investment Manager 

 9

 
 
 
 
                                                          
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
EXHIBIT 23.1

To the Board of Directors
Pacific Ethanol, Inc.
Sacramento, California

CONSENT OF INDEPENDENT REGISTERED PUBLIC ACCOUNTING FIRM

We consent to the incorporation by reference in Registration Statements (Nos. 333-106554, 333-123538, 333-137663, 333-169002 and 333-
176540) on Form S-8 and (Nos. 333-127714, 333-135270, 333-138260, 333-143617 and 333-147471) on Form S-3 of Pacific Ethanol, Inc. of
our report dated March 8, 2012 relating to our audits of the consolidated financial statements, which appears in this Annual Report on Form 10-K
of Pacific Ethanol, Inc. for the year ended December 31, 2011.

/s/ HEIN & ASSOCIATES LLP

Irvine, California
March 8, 2012

 
 
 
 
 
 
 
March 8, 2012

EXHIBIT 31.1

I, Neil M. Koehler, certify that:

CERTIFICATION

1. I have reviewed this Annual Report on Form 10-K of Pacific Ethanol, Inc.;

2. Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to
make  the  statements  made,  in  light  of  the  circumstances  under  which  such  statements  were  made,  not  misleading  with  respect  to  the  period
covered by this report;

3. Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material

respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4. The registrant’s other certifying officers and I are responsible for establishing and maintaining disclosure controls and procedures (as
defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-
15(f) and 15d-15(f)) for the registrant and have:

(a) Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our
supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others
within those entities, particularly during the period in which this report is being prepared;

(b) Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed
under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements
for external purposes in accordance with generally accepted accounting principles;

(c) Evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions
about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

(d)  Disclosed  in  this  report  any  change  in  the  registrant’s  internal  control  over  financial  reporting  that  occurred  during  the
registrant’s  most  recent  fiscal  quarter  (the  registrant’s  fourth  fiscal  quarter  in  the  case  of  an  annual  report)  that  has  materially  affected,  or  is
reasonably likely to materially affect, the registrant’s internal control over financial reporting; and

5. The registrant’s other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial
reporting,  to  the  registrant’s  auditors  and  the  audit  committee  of  the  registrant’s  board  of  directors  (or  persons  performing  the  equivalent
functions):

(a) All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which

are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and

(b) Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s

internal control over financial reporting.

Date: March 8, 2012

/s/ NEIL M. KOEHLER
Neil M. Koehler
President and Chief Executive Officer (Principal

Executive Officer)

 
 
 
 
 
 
 
 
 
 
 
 
 
Executive Officer)

EXHIBIT 31.2

I, Bryon T. McGregor, certify that:

CERTIFICATION

1. I have reviewed this Annual Report on Form 10-K of Pacific Ethanol, Inc.;

2. Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to
make  the  statements  made,  in  light  of  the  circumstances  under  which  such  statements  were  made,  not  misleading  with  respect  to  the  period
covered by this report;

3. Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material

respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4. The registrant’s other certifying officers and I are responsible for establishing and maintaining disclosure controls and procedures (as
defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-
15(f) and 15d-15(f)) for the registrant and have:

(a) Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our
supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others
within those entities, particularly during the period in which this report is being prepared;

(b) Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed
under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements
for external purposes in accordance with generally accepted accounting principles;

(c) Evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions
about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

(d)  Disclosed  in  this  report  any  change  in  the  registrant’s  internal  control  over  financial  reporting  that  occurred  during  the
registrant’s  most  recent  fiscal  quarter  (the  registrant’s  fourth  fiscal  quarter  in  the  case  of  an  annual  report)  that  has  materially  affected,  or  is
reasonably likely to materially affect, the registrant’s internal control over financial reporting; and

5. The registrant’s other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial
reporting,  to  the  registrant’s  auditors  and  the  audit  committee  of  the  registrant’s  board  of  directors  (or  persons  performing  the  equivalent
functions):

(a) All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which

are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and

(b) Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s

internal control over financial reporting.

Date: March 8, 2012

/s/ BRYON T. MCGREGOR
Bryon T. McGregor
Chief Financial Officer
(Principal Financial and Accounting Officer)

 
 
 
 
 
 
 
 
 
 
 
 
 
(Principal Financial and Accounting Officer)

EXHIBIT 32.1

CERTIFICATIONS OF CHIEF EXECUTIVE OFFICER AND CHIEF FINANCIAL OFFICER
PURSUANT TO 18 U.S.C. SECTION 1350,
AS ADOPTED PURSUANT TO
SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

In connection with the Annual Report on Form 10-K of Pacific Ethanol, Inc. (the “Company”) for the year ended December 31, 2011 (the
“Report”), the undersigned hereby certify in their capacities as Chief Executive Officer and Chief Financial Officer of the Company, respectively,
pursuant to 18 U.S.C. section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that:

1.    the Report fully complies with the requirements of Section 13(a) or 15(d) of the Securities Exchange Act of 1934, as amended; and

2.    the information contained in the Report fairly presents, in all material respects, the financial condition and results of operations of the

Company.

Date:  March 8, 2012

Date:  March 8, 2012

By:

/s/ NEIL M. KOEHLER
Neil M. Koehler
Chief Executive Officer
(Principal Executive Officer)

By:

/s/ BRYON T. MCGREGOR
Bryon T. McGregor
Chief Financial Officer (Principal Financial and Accounting Officer)

A signed original of this written statement required by Section 906, or other document authenticating, acknowledging, or otherwise adopting the
signatures  that  appear  in  typed  form  within  the  electronic  version  of  this  written  statement  required  by  Section  906,  has  been  provided  to  the
Company and will be retained by the Company and furnished to the Securities and Exchange Commission or its staff upon request.

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Company and will be retained by the Company and furnished to the Securities and Exchange Commission or its staff upon request.