ARADIGM CORP
S-3/A, 1999-03-09
ELECTROMEDICAL & ELECTROTHERAPEUTIC APPARATUS
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<PAGE>   1
 
   
     AS FILED WITH THE SECURITIES AND EXCHANGE COMMISSION ON MARCH 8, 1999
                                                      REGISTRATION NO. 333-72037
    
================================================================================
 
                       SECURITIES AND EXCHANGE COMMISSION
                             WASHINGTON, D.C. 20549
                            ------------------------
 
   
                                AMENDMENT NO. 1
                                       TO
    
 
                                    FORM S-3
                             REGISTRATION STATEMENT
                                     UNDER
                           THE SECURITIES ACT OF 1933
                            ------------------------
 
                              ARADIGM CORPORATION
             (EXACT NAME OF REGISTRANT AS SPECIFIED IN ITS CHARTER)
 
<TABLE>
<S>                              <C>                              <C>
           CALIFORNIA                          3845                          94-3133088
(STATE OR OTHER JURISDICTION OF    (PRIMARY STANDARD INDUSTRIAL   (I.R.S. EMPLOYER IDENTIFICATION
 INCORPORATION OR ORGANIZATION)    CLASSIFICATION CODE NUMBER)                NUMBER)
</TABLE>
 
                              3929 POINT EDEN WAY
                           HAYWARD, CALIFORNIA 94545
                                 (510) 265-9000
  (ADDRESS, INCLUDING ZIP CODE, AND TELEPHONE NUMBER, INCLUDING AREA CODE, OF
                   REGISTRANT'S PRINCIPAL EXECUTIVE OFFICES)
 
                              RICHARD P. THOMPSON
                     PRESIDENT AND CHIEF EXECUTIVE OFFICER
                              ARADIGM CORPORATION
                              3929 POINT EDEN WAY
                           HAYWARD, CALIFORNIA 94545
                                 (510) 265-9000
 (NAME, ADDRESS, INCLUDING ZIP CODE, AND TELEPHONE NUMBER, INCLUDING AREA CODE,
                             OF AGENT FOR SERVICE)
 
                                   COPIES TO:
                                 JAMES C. KITCH
                               JEFFREY S. ZIMMAN
                                 JAMIE E. CHUNG
                               COOLEY GODWARD LLP
                             FIVE PALO ALTO SQUARE
                              3000 EL CAMINO REAL
                        PALO ALTO, CALIFORNIA 94306-2155
                                 (650) 843-5000
 
        APPROXIMATE DATE OF COMMENCEMENT OF PROPOSED SALE TO THE PUBLIC:
     From time to time after the Registration Statement becomes effective.
 
    If the only securities being registered on this Form are being offered
pursuant to dividend or interest reinvestment plans, please check the following
box.  [ ]
 
    If any of the securities being registered on this Form are to be offered on
a delayed or continuous basis pursuant to Rule 415 under the Securities Act of
1933, other than securities offered only in connection with dividend or interest
reinvestment plans, check the following box.  [X]
 
    If this form is filed to register additional securities for an offering
pursuant to Rule 462(b) under the Securities Act, please check the following box
and list the Securities Act registration statement number of the earlier
effective registration statement for the same offering.  [ ]
 
    If this form is a post-effective amendment filed pursuant to Rule 462(c)
under the Securities Act, check the following box and list the Securities Act
registration statement number of the earlier effective registration statement
for the same offering.  [ ]
 
    If delivery of the Prospectus is expected to be made pursuant to Rule 434,
please check the following box.  [ ]
 
   
    

    THE REGISTRANT HEREBY AMENDS THIS REGISTRATION STATEMENT ON SUCH DATE OR
DATES AS MAY BE NECESSARY TO DELAY ITS EFFECTIVE DATE UNTIL THE REGISTRANT SHALL
FILE A FURTHER AMENDMENT THAT SPECIFICALLY STATES THAT THIS REGISTRATION
STATEMENT SHALL THEREAFTER BECOME EFFECTIVE IN ACCORDANCE WITH SECTION 8(A) OF
THE SECURITIES ACT OF 1933, AS AMENDED, OR UNTIL THE REGISTRATION STATEMENT
SHALL BECOME EFFECTIVE ON SUCH DATE AS THE COMMISSION, ACTING PURSUANT TO SAID
SECTION 8(A), MAY DETERMINE.

================================================================================
<PAGE>   2
 
Information in this prospectus is not complete and may be changed. We may not
sell these securities until the registration statement filed with the Securities
and Exchange Commission is effective. This prospectus is not an offer to sell
these securities and is not soliciting an offer to buy these securities in any
state where the offer or sale is not permitted.
 
   
                   SUBJECT TO COMPLETION, DATED MARCH 9, 1999
    
 
PROSPECTUS
 
                                2,428,338 SHARES
 
                              ARADIGM CORPORATION
                                  COMMON STOCK
                           -------------------------
 
     The selling shareholders identified in this prospectus may sell up to
2,428,338 shares of common stock of Aradigm Corporation, a California
corporation. The selling shareholders may offer and sell their shares of common
stock from time to time:
 
     - on terms to be determined at the time of a sale;
 
     - in transactions on the Nasdaq National Market;
 
     - in privately negotiated transactions; or
 
     - in a combination of these methods of sale.
 
     Please see "Where You Can Find More Information" on page 12 for additional
information about us on file with the United States Securities and Exchange
Commission.
 
   
     Aradigm's Common Stock is traded on the Nasdaq National Market under the
symbol "ARDM." On March 5, 1999 the closing price for the Common Stock on the
Nasdaq National Market was $9.19 per share.
    
                           -------------------------
 
     WE STRONGLY URGE YOU TO READ AND CONSIDER THIS PROSPECTUS CAREFULLY AND IN
ITS ENTIRETY. INVESTING IN THE COMMON STOCK INVOLVES A HIGH DEGREE OF RISK. SEE
"RISK FACTORS" BEGINNING ON PAGE 2.
                           -------------------------
 
     NEITHER THE SECURITIES AND EXCHANGE COMMISSION NOR ANY STATE SECURITIES
COMMISSION HAS APPROVED OR DISAPPROVED OF THESE SECURITIES OR PASSED UPON THE
ACCURACY OR ADEQUACY OF THIS PROSPECTUS. ANY REPRESENTATION TO THE CONTRARY IS A
CRIMINAL OFFENSE.
   
                                March    , 1999
    
<PAGE>   3
 
                                  THE COMPANY
 
     We are developing novel pulmonary drug delivery systems designed to enhance
the delivery and effectiveness of a number of existing and development-stage
drugs and reduce the need for injectable drug therapy. Our principal product
development programs are based on our AERx(TM) Pulmonary Drug Delivery System,
which uses proprietary technologies to create aerosols from liquid drug
formulations for delivery systemically via the lung or locally to the lung. We
believe that our systems can potentially be used to deliver a number of existing
drugs for a variety of applications and may also offer a promising means of
delivery for many new drugs being developed by pharmaceutical and biotechnology
companies.
 
     Our company was incorporated in California in January 1991. References in
the prospectus to "Aradigm," "we," "our," "us" and the "Company" refer to
Aradigm Corporation, a California corporation. Our principal executive offices
are located at 3929 Point Eden Way, Hayward, CA 94545, and our telephone number
is (510) 265-9000. We maintain a website at www.aradigm.com. The contents of our
web page are not incorporated herein and are not a part of this prospectus. For
a more detailed discussion of our business, see our Annual Report on Form 10-K
for the year ended December 31, 1997, which is incorporated by reference herein.
 
     Aradigm(TM) and AERx(TM) are trademarks of the Company. Trade names and
trademarks of other companies appearing in this prospectus are the property of
their respective holders.
 
                                  RISK FACTORS
 
     You should carefully consider the following risk factors and all other
information in this prospectus and incorporated by reference herein before
purchasing our common stock. Investing in our common stock has a high degree of
risk. The risks and uncertainties described below are not the only ones facing
our company. Additional risks and uncertainties that are not yet identified or
that we currently think are immaterial may also materially adversely affect our
business. If any of the following risks actually occur, our business, financial
condition or results of operations would likely suffer and could result in a
complete loss of your investment.
 
     In addition to historical information, this prospectus contains
forward-looking statements. These forward-looking statements involve certain
risks and uncertainties that could cause actual results to differ materially
from those in such forward-looking statements.
 
WE HAVE A LIMITED OPERATING HISTORY
 
     We were incorporated in January 1991 and we have a limited operating
history and have generated only limited revenues to date. Virtually all of our
potential products are in an early stage of research or development. We cannot
assure you that:
 
     - our research and development efforts will be successful;
 
     - any potential products will be proven safe and effective;
 
     - regulatory clearance or approval to sell any potential products will be
       obtained; or
 
                                        2
<PAGE>   4
 
     - any of our potential products can be manufactured in commercial
       quantities or at an acceptable cost or marketed successfully.
 
WE HAVE A HISTORY OF LOSSES AND ANTICIPATE FUTURE LOSSES
 
     We have never been profitable, and through September 30, 1998, we have
incurred a cumulative deficit of approximately $46.9 million. We expect to
continue to incur substantial losses over at least the next several years as we:
 
     - expand our research and development efforts;
 
     - expand our preclinical and clinical testing activities;
 
     - expand our manufacturing efforts; and
 
     - plan and build our clinical and initial commercial production
       capabilities.
 
WE MAY NOT BE ABLE TO DEVELOP PRODUCTS SUCCESSFULLY
 
     Our AERx systems are at an early stage of development and we are currently
testing them using hand-held prototypes. Before we can begin to sell the AERx
systems commercially, we will need to invest in substantial additional
development and conduct preclinical and clinical testing. In order to further
develop our AERx systems, we will need to address engineering and design issues,
including ensuring that the AERx systems can deliver a reproducible amount of
drug into the bloodstream and can be manufactured successfully as hand-held
systems. We cannot assure investors that we will be successful in addressing
these design, engineering and manufacturing issues. Additionally, we may need to
formulate and will need to package drugs for delivery by our AERx systems. We
cannot assure investors that we will be able to do this successfully.
 
     For the AERx systems to be commercially viable, we will need to demonstrate
that drugs delivered by the AERx systems:
 
     - are safe and effective;
 
     - will not be subject to physical or chemical instability over time and
       under differing storage conditions; and
 
     - do not suffer from other problems that would affect commercial viability.
 
     While our development efforts are at different stages for different
products, we cannot assure investors that we will successfully develop any
products. We may also abandon some or all of our proposed products. If we cannot
develop potential products in a timely manner, our business will be impaired.
 
WE MAY NOT BE ABLE TO COMMERCIALIZE PRODUCTS SUCCESSFULLY
 
     Our success in commercializing our products depends on many factors,
including acceptance by health care professionals and patients. Their acceptance
of our products will largely depend on our ability to show them that our
products' ability to compete with alternate delivery systems with respect to:
 
     - safety;
 
     - efficacy;
                                        3
<PAGE>   5
 
     - ease of use; and
 
     - price.
 
     We cannot assure investors that our products will be competitive with
respect to these factors or that our partners will be able to successfully
market any of them in a timely manner.
 
WE DEPEND UPON COLLABORATIVE PARTNERS AND NEED ADDITIONAL COLLABORATIVE PARTNERS
 
     Our commercialization strategy depends on our ability to enter into
agreements with collaborative partners. In particular, our ability to
successfully develop and commercialize the AERx Pain Management System depends
on our corporate partnership with SmithKline Beecham and our ability to
successfully develop and commercialize the AERx Diabetes Management System
depends on our corporate partnership with Novo Nordisk. SmithKline Beecham and
Novo Nordisk have agreed to:
 
     - undertake certain collaborative activities with us;
 
     - design and conduct advanced clinical trials;
 
     - fund research and development activities with us;
 
     - pay us fees upon achievement of certain milestones; and
 
     - purchase product at a defined premium, pay royalties and/or share gross
       profits if and when we commercialize a product.
 
     The development and commercialization of these systems will be delayed if
SmithKline Beecham or Novo Nordisk fail to conduct these collaborative
activities in a timely manner or at all. In addition, SmithKline Beecham or Novo
Nordisk could terminate these agreements and we cannot assure investors that we
will receive any development and milestone payments. If we do not receive
development funds or achieve milestones set forth in the agreements, or if
SmithKline Beecham or Novo Nordisk breach or terminate either agreement, our
business will be impaired.
 
     We will also need to enter into agreements with other corporate partners to
conduct the clinical trials, manufacturing, marketing and sales necessary to
commercialize other potential products. In addition, our ability to apply the
AERx system to any proprietary drugs will depend on our ability to establish and
maintain corporate partnerships or other collaborative arrangements with the
holders of proprietary rights to such drugs. We cannot assure investors that we
will be able to establish such additional corporate partnerships or
collaborative arrangements on favorable terms or at all, or that our existing or
future corporate partnerships or collaborative arrangements will be successful.
Nor can we assure investors that existing or future corporate partners or
collaborators will not pursue alternative technologies or develop alternative
products either on their own or in collaboration with others, including our
competitors. We could have disputes with our existing or future corporate
partners or collaborators. Any such disagreements could lead to delays in the
research, development or commercialization of any potential products or could
result in time-consuming and expensive litigation or arbitration. If any of our
corporate partners or collaborators do not develop or commercialize any product
to which it has obtained rights from us, our business could be impaired.
 
                                        4
<PAGE>   6
 
WE HAVE LIMITED MANUFACTURING EXPERIENCE
 
     We have only limited manufacturing experience. We have validated only a
single pilot-scale facility for manufacturing disposable packets for our various
AERx systems. We anticipate spending significant amounts to attempt to provide
for the high-volume manufacturing required for multiple AERx products, and some
of this spending will occur before our products are approved. We cannot assure
investors that:
 
     - we will be able to manufacture sufficient quantities of our products to
       support any future clinical trials;
 
     - the design requirements of the AERx system will make it feasible for us
       to develop it beyond the current prototype;
 
     - manufacturing and quality control problems will not arise as we attempt
       to scale-up; or
 
     - any scale-up can be achieved in a timely manner or at a commercially
       reasonable cost.
 
Failure to address these issues could delay or prevent late-stage clinical
testing and commercialization of our products.
 
     Our manufacturing facilities and our contract manufacturers' facilities
will be subject to periodic regulatory inspections by the Food and Drug
Administration (FDA) and other federal and state regulatory agencies. These
facilities must comply with the good manufacturing practice (GMP) requirements
of the FDA. We cannot assure investors that we will satisfy such regulatory
requirements, and any failure to satisfy GMP and other requirements could impair
our business.
 
     We intend to use contract manufacturers to produce key components,
assemblies and subassemblies in the clinical and commercial manufacturing of our
AERx devices. We cannot assure investors that we will be able to enter into or
maintain satisfactory contract manufacturing arrangements. Certain components of
our products may be available, at least initially, only from single sources. We
cannot assure investors that we could find alternate suppliers for any of these
components. A delay of or interruption in production resulting from any supply
problem could have a material adverse effect on our business.
 
WE WILL NEED ADDITIONAL CAPITAL AND OUR ABILITY TO FIND ADDITIONAL
FUNDING IS UNCERTAIN
 
     Our operations to date have consumed substantial and increasing amounts of
cash. We expect the negative cash flow from operations to continue in the
foreseeable future. We will need to commit substantial funds to develop our
technology and proposed products. We will have to continue to conduct costly and
time-consuming research and preclinical and clinical testing to develop, refine
and commercialize our technology and proposed products. Our future capital
requirements will depend on many factors, including:
 
     - progress in researching and developing our technology and drug delivery
       systems;
 
     - our ability to establish and maintain favorable collaborative
       arrangements with others;
 
     - progress with preclinical studies and clinical trials;
 
                                        5
<PAGE>   7
 
     - time and costs to obtain regulatory approvals;
 
     - costs of development and the rate we expand our production technologies;
 
     - costs of preparing, filing, prosecuting, maintaining and enforcing patent
       claims; and
 
     - our need to acquire licenses or other rights to technology.
 
Since inception, we have financed our operations primarily through equity
financings, financings of equipment acquisitions, contract research revenue and
interest earned on investments.
 
     We anticipate that we will be able to maintain our current and planned
operations through the next two years with our existing resources, anticipated
payments from our existing corporate partners and projected interest income.
Depending upon the timing and nature of additional development collaborations,
we may need to raise additional funds to fund operations beyond that period. Our
cash requirements may change because of our research and development efforts,
including capital expenditures and funding preclinical and clinical trials and
manufacturing capacity. We may seek additional funding through collaborations or
through public or private equity financings. We cannot assure investors that
additional financing will be available on acceptable terms or at all. If we
raise additional funds by issuing equity securities, substantial dilution to
shareholders may result. If adequate funds are not available, we may be required
to delay, reduce the scope of, or eliminate one or more of our research or
development programs or obtain funds through arrangements with collaborative
partners or others. Such arrangements might require us to relinquish rights to
certain of our technologies, product candidates or products that we would not
otherwise relinquish.
 
WE DEPEND UPON PROPRIETARY TECHNOLOGY; THE STATUS OF PATENTS AND PROPRIETARY
TECHNOLOGY IS UNCERTAIN
 
     The field of aerosolized drug delivery is crowded and a substantial number
of patents have been issued. Competitors and institutions may have applied for
and may obtain additional patents and proprietary rights relating to competing
products or processes.
 
     Patents or other publications may hinder us from obtaining patent
protection or draw into question the validity of patents already issued to us.
In addition, patents issued to others might allow competitors to prevent us from
making our products or carrying out processes necessary to use our products. We
may not be able to obtain a license under any such patent and may be prevented
from making products or carrying out processes which are important or essential
to our business. We cannot assure investors that any of our patents would be
upheld as valid if challenged in litigation. There also can be no assurance that
any of our patent applications will issue or, if issued, will later be found
valid if challenged. Furthermore, we cannot assure investors that any issued
patents or patent applications will provide us with sufficient market
exclusivity to profitably compete against our competitors. In the United States,
patent applications are secret until they are issued. As a result, we cannot
know what patents others may have applied for. We may take actions now that
create infringement issues if and when a pending application covering similar
technology is subsequently issued. Furthermore, patents already issued to us or
our pending applications may become subject to dispute, and any disputes could
be resolved against us. Whether or not we are successful, any dispute could
involve the expenditure of substantial financial and human resources.
 
                                        6
<PAGE>   8
 
     We require our officers, employees, consultants and advisors to execute
proprietary information and invention assignment agreements when they began
their relationships with us. We cannot assure investors, however, that these
agreements will provide meaningful protection for our inventions, trade secrets
or other proprietary information in the event of unauthorized use or disclosure
of such information. Violations of such agreements are difficult to police.
 
OUR BUSINESS IS REGULATED BY THE GOVERNMENT; RESULTS OF PRECLINICAL
AND CLINICAL TESTING ARE UNCERTAIN
 
     All medical devices and new drugs, including our products under
development, are subject to extensive and rigorous regulation by the federal
government, principally the FDA, and by state and local governments. Such
regulations govern the development, testing, manufacture, labeling, storage,
premarket clearance or approval, advertising, promotion, sale and distribution
of such products. Medical devices or drug products that are marketed abroad are
also subject to regulation by foreign governments.
 
     The process for obtaining FDA premarket clearances or approvals for medical
devices and drug products is generally lengthy, expensive and uncertain.
Securing FDA marketing clearances and approvals often requires applicants to
submit extensive clinical data and supporting information to the FDA. Even if
granted, the FDA can withdraw product clearances and approvals for failure to
comply with regulatory requirements or upon the occurrence of unforeseen
problems following initial marketing.
 
     We cannot assure investors that we will be able to obtain necessary
regulatory clearances or approvals on a timely basis, if at all, for any of our
potential products. Our business would suffer if:
 
     - receipt of clearances or approvals is delayed;
 
     - we fail to receive such clearances or approvals; or
 
     - we fail to comply with existing or future regulatory requirements.
 
     Even if granted, regulatory clearances or approvals may include significant
limitations on the uses for which products may be marketed. Certain changes to
marketed medical devices and new drugs are subject to additional FDA review and
clearance or approval.
 
     We cannot assure investors that any required clearances or approvals, once
obtained, will not be withdrawn or that we will remain in compliance with other
regulatory requirements. If we (or manufacturers of our components) fail to
comply with applicable FDA and other regulatory requirements, we (and they) are
subject to sanctions, including:
 
     - warning letters;
 
     - fines;
 
     - product recalls or seizures;
 
     - injunctions;
 
     - refusals to permit products to be imported into or exported out of the
       United States;
 
                                        7
<PAGE>   9
 
     - FDA refusal to grant premarket clearance or premarket approval of medical
       devices and drugs;
 
     - FDA refusal to allow us to enter into government supply contracts;
 
     - withdrawals of previously approved marketing applications; and
 
     - criminal prosecutions.
 
     Before we can file for regulatory approval for the commercial sale of our
potential AERx products, the FDA will require extensive preclinical and clinical
testing to demonstrate their safety and efficacy. To date, we have tested
prototype patient-operated versions of our AERx Systems with morphine and
insulin on a limited number of individuals in Phase I and Phase II clinical
trials in the United States and with insulin on a limited number of individuals
in Phase I and Phase II trials in Australia. If we do not or cannot complete
these trials or progress to more advanced clinical trials, we may not be able to
commercialize our AERx products.
 
     Completing clinical trials in a timely manner depends on, among other
factors, the enrollment of patients. Our ability to recruit patients depends on
a number of factors, including the size of the patient population, the proximity
of patients to clinical sites, the eligibility criteria for the study and the
existence of competitive clinical trials. Delays in planned patient enrollment
in our current or future clinical trials may result in increased costs, program
delays or both.
 
     We are also developing applications of our AERx system for the delivery of
other compounds. These applications are in an early stage of development and we
do not yet know the degree of testing and development that will be needed to
obtain necessary marketing approvals from the FDA and other regulatory agencies.
We cannot assure investors that these applications will prove to be viable or
that any necessary regulatory approvals will be obtained in a timely manner, if
at all. Although we believe the data regarding our potential products is
encouraging, the results of initial preclinical and clinical testing do not
necessarily predict the results that we will get from subsequent or more
extensive preclinical and clinical testing. Furthermore, we cannot assure
investors that clinical trials of these products will demonstrate that these
products are safe and effective to the extent necessary to obtain regulatory
approvals. Many companies in the pharmaceutical and biotechnology industries
have suffered significant setbacks in advanced clinical trials, even after
promising results in earlier trials. If we cannot adequately demonstrate that
any therapeutic product we are developing is safe and effective, regulatory
approval of that product would be delayed or prevented, which would impair our
business.
 
     In addition, the FDA may require us to provide clinical data to demonstrate
that the chronic administration of drugs delivered via the lung for systemic
effect is safe. We cannot assure investors that we will be able to present such
data in a timely manner, or at all.
 
     Manufacturers of medical devices and drugs also are required to comply with
the applicable GMP requirements, which relate to product testing, quality
assurance and maintaining records and documentation. We cannot assure investors
that we will be able to comply with the applicable GMP and other FDA regulatory
requirements for manufacturing as we expand our manufacturing operations, which
would impair our business.
 
                                        8
<PAGE>   10
 
     In addition, to market our products in foreign jurisdictions, we and our
partners must obtain required regulatory approvals and clearances from foreign
regulatory agencies and comply with extensive regulations regarding safety and
quality. We cannot assure investors that we will obtain regulatory approvals in
such countries or that we will not be required to incur significant costs in
obtaining or maintaining our foreign regulatory approvals. If approvals to
market our products are delayed, if we fail to receive these approvals, or if we
lose previously received approvals, our business would be impaired.
 
     Because our AERx Pain Management System clinical studies involve morphine,
we are registered with the Drug Enforcement Agency (DEA) and our facilities are
subject to inspection and DEA export, import, security and production quota
requirements. We cannot assure investors that we will not be required to incur
significant costs to comply with DEA regulations in the future or that such
regulations will not otherwise harm our business.
 
WE ARE IN A HIGHLY COMPETITIVE MARKET AND OUR COMPETITORS MAY DEVELOP
ALTERNATIVE THERAPIES
 
     The medical device, pharmaceutical and biotechnology industries are highly
competitive and rapidly evolving. Our success depends on our ability to
successfully develop products and technologies for pulmonary drug delivery. If a
competing company were to develop or acquire rights to a better pulmonary
delivery device, our business would be harmed.
 
     We compete with pharmaceutical, biotechnology and drug delivery companies
and other entities engaged in the development of alternative drug delivery
systems or new drug research and testing, as well as with entities producing and
developing injectable drugs. There are a number of companies currently seeking
to develop new products and non-invasive alternatives to injectable drug
delivery, including oral, intranasal and transdermal delivery systems and
colonic absorption systems. A competitor of the Company has recently received
approval for fentanyl, a narcotic analgesic, to treat rapid-onset pain in
certain types of patients. Other companies are currently developing and
commercializing enhanced injectable drug delivery systems and pulmonary drug
delivery systems. Many of our competitors have greater research and development
capabilities, experience, manufacturing, marketing, sales, financial and
managerial resources than we do, and they represent significant competition for
our business. Our competitors' financial, marketing and other resources could be
further enhanced if they are acquired by large pharmaceutical companies or if
they enter into partnering arrangements.
 
     Our competitors may succeed in developing competing technologies, obtaining
FDA approval for products more rapidly than us and in gaining greater market
acceptance of their products than our products. We cannot assure investors that
developments by others will not render some or all of our proposed products or
technologies uncompetitive or obsolete.
 
WE DEPEND ON KEY PERSONNEL
 
     We depend on a small number of key management and technical personnel.
Losing any of these key employees could harm our business and operations. Our
success also depends on our ability to attract and retain additional highly
qualified marketing, management, manufacturing, engineering and research and
development personnel. We
 
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<PAGE>   11
 
face intense competition in our recruiting activities, and we may not be able to
attract or retain qualified personnel.
 
WE MAY BE EXPOSED TO PRODUCT LIABILITY
 
     Researching, developing and commercializing medical devices and therapeutic
products entails significant product liability risks. The use of our products in
clinical trials and the commercial sale of such products may expose us to
liability claims. These claims might be made directly by consumers or by
pharmaceutical companies or others selling such products.
 
     Companies often address the exposure of such risk by obtaining product
liability insurance. Although we currently have product liability insurance, we
cannot assure investors that we can maintain such insurance or obtain additional
insurance on acceptable terms, in amounts sufficient to protect our business, or
at all. A successful claim brought against us in excess of our insurance
coverage would have a material adverse effect on our business.
 
THIRD-PARTY REIMBURSEMENT FOR OUR PRODUCTS IS UNCERTAIN
 
     In both domestic and foreign markets, sales of our potential products, if
any, depend in part on the availability of reimbursement from third-party payors
such as government health administration authorities, private health insurers
and other organizations. Third-party payors are increasingly challenging the
price and cost-effectiveness of medical products and services. Significant
uncertainty exists as to the reimbursement status of newly approved health care
products. We cannot assure investors that any of our products will be
reimbursable by third-party payors. In addition, we cannot assure investors that
our products will be considered cost-effective or that adequate third-party
reimbursement will be available to enable us to maintain price levels sufficient
to realize a profit. Legislation and regulations affecting the pricing of
pharmaceuticals may change before our products are approved for marketing and
any such changes could further limit reimbursement.
 
WE USE HAZARDOUS MATERIALS
 
     Our operations involve the controlled use of hazardous materials, chemicals
and various radioactive compounds. Although we believe that our safety
procedures for handling and disposing of such materials comply with the state
and federal regulations standards, the risk of accidental contamination or
injury from these materials cannot be completely eliminated. In the event of
such an accident, we could be held liable for any damages that result and such
liability could exceed the resources of our business.
 
OUR STOCK PRICE MAY BE VOLATILE
 
     The market prices for securities of many companies in the pharmaceutical
development industry, including ours, have historically been highly volatile,
and the market from time to time has experienced significant price and volume
fluctuations unrelated to the operating performance of particular companies.
Prices for our common stock may be influenced by many factors, including:
 
     - investor perception of us;
 
     - analyst recommendations;
 
                                       10
<PAGE>   12
 
     - fluctuations in our operating results;
 
     - market conditions relating to the pharmaceutical industry;
 
     - announcements of technological innovations or new commercial products by
       us or our competitors;
 
     - publicity regarding actual or potential developments relating to products
       under development by us or our competitors;
 
     - developments or disputes concerning patent or proprietary rights;
 
     - delays in the development or approval of our product candidates;
 
     - regulatory developments in both the United States and foreign countries;
 
     - public concern as to the safety of drug technologies;
 
     - period-to-period fluctuations in financial results;
 
     - future sales of substantial amounts of common stock by existing
       shareholders; or
 
     - economic and other external factors.
 
     In the past, class action securities litigation has often been instituted
against companies following periods of volatility in the market price of their
securities. Any such litigation instigated against us could result in
substantial costs and a diversion of management's attention and resources.
 
YEAR 2000 ISSUE
 
     As the year 2000 approaches, a "Year 2000" issue has arisen because many
existing application software programs, operating systems and manufacturing
equipment containing computer-related components (Systems) were designed to use
only the last two digits to represent a year (e.g., the year 1998 is represented
by "98" on the system or in the program). As a result, the year 1999 (i.e.,
"99") could be the maximum date value Systems will be able to process
accurately. If not corrected, the Year 2000 problem could cause system failures
or miscalculations resulting in inaccuracies in computer output or disruptions
of operations, including inaccurate processing of financial, personnel and other
information as well as the inability to process transactions or engage in
similar normal business activities.
 
     We are currently developing a strategy to address the potential exposures
related to the impact of the Year 2000 problem on our Systems. We have appointed
a project manager to lead our assessment of the Year 2000 problem. We have begun
an initial inventory of our key internal financial, informational and
operational systems, including manufacturing control systems, to identify those
areas that may be affected by the Year 2000 problem. We intend to complete this
inventory by the end of the first quarter of fiscal 1999. We are in the final
stages of developing plans for implementing and testing any necessary
modifications to these key Systems to ensure Year 2000 compliance. We currently
estimate that any required remediation programs will be completed by the third
quarter of fiscal 1999.
 
     In addition to the risks associated with our own Systems, we have
relationships with, and are to varying degrees dependent upon, a large number of
third parties that provide us
 
                                       11
<PAGE>   13
 
with information, goods and services. If significant numbers of these third
parties experience failures in their own Systems due to the Year 2000 problem,
it could affect our ability to process transactions or engage in similar normal
business activities. We have not yet determined the impact on our operations, if
any, if key third parties fail to take necessary actions. We have initiated
formal communications with significant third parties to assess their Year 2000
compliance and determine the extent to which we may be vulnerable to those third
parties' failure to remedy their own Year 2000 issues.
 
     We do not yet know the total cost associated with becoming Year 2000
compliant. To date, we have not incurred, and we do not anticipate that we will
incur, significant operating expenses that would be material to our business.
While we plan to complete modifications of our business-critical Systems prior
to the Year 2000, if we (or our third-party providers) do not complete such
modifications in a timely manner, the Year 2000 problem could impair our
business. We cannot predict the extent of any such impact. We cannot assure
investors that we or any third party will not encounter any unforeseen problems
with respect to any Systems, and these unforeseen problems could impair our
business. We currently have no contingency plans to deal with any major Year
2000 non-compliance, though we will develop such plans over the coming quarters.
 
                           FORWARD-LOOKING STATEMENTS
 
     This prospectus contains forward-looking statements, which include
statements based on our current expectations, assumptions, estimates and
projections about our company and our industry, including statements about the
timing and results of clinical trials, regulatory approval, the establishment of
corporate partnering arrangements, the anticipated commercial introduction of
our products and the timing of our cash requirements. Words such as "believes,"
"anticipates," "expects," "intends," "plans" and similar expressions are
intended to identify forward-looking statements, but are not the exclusive means
of identifying these statements. Actual results could differ materially from
those projected in any forward-looking statements for the reasons detailed in
"Risk Factors" or elsewhere in this Prospectus. We assume no obligation to
update any forward-looking statement.
 
                      WHERE YOU CAN FIND MORE INFORMATION
 
AVAILABLE INFORMATION
 
     We have filed with the SEC a registration statement on Form S-3 to register
the common stock offered by this prospectus. However, this prospectus does not
contain all of the information contained in the registration statement and the
exhibits and schedules to the registration statement. We strongly encourage you
to carefully read the registration statement and the exhibits and schedules to
the registration statement. We also file annual, quarterly and special reports,
proxy statements and other information with the SEC.
 
     You may inspect and copy these materials at the public reference facilities
maintained by the SEC at 450 Fifth Street, N.W., Washington, D.C. 20549, as well
as at the SEC's regional offices at 7 World Trade Center, Suite 1300, New York,
New York, 10048, and 500 West Madison Street, Suite 1400, Chicago, Illinois
60661. You may also obtain copies of these materials from the SEC at prescribed
rates by writing to the SEC's Public Reference Section, 450 Fifth Street, N.W.,
Washington, D.C. 20549. Please call the SEC
 
                                       12
<PAGE>   14
 
at 1-800-SEC-0330 for further information on the public reference rooms. Our SEC
filings are also available to the public from the SEC's website at www.sec.gov.
 
     Our common stock is quoted on the Nasdaq National Market under the symbol
"ARDM." You may inspect reports and other information concerning us at the
offices of the National Association of Securities Dealers, Inc., 1735 K Street,
N.W., Washington, D.C. 20006.
 
INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE
 
     The SEC allows us to "incorporate by reference" the information contained
in documents that we file with them, which means that we can disclose important
information to you by referring you to those documents. The information
incorporated by reference is considered to be part of this prospectus.
Information in this prospectus supersedes information incorporated by reference
which we filed with the SEC prior to the date of this prospectus, while
information that we file later with the SEC will automatically update and
supersede this information. We incorporate by reference the documents listed
below and any future filings we will make with the SEC under Sections 13(a),
13(c), 14 or 15(d) of the Securities Exchange Act of 1934:
 
   
     1. Our Annual Report on Form 10-K for the fiscal year ended December 31,
        1998, filed on March 9, 1999, including all material incorporated by
        reference therein;
    
 
   
     2. Our Annual Report on Form 10-K for the fiscal year ended December 31,
        1997, filed on March 24, 1998, an amendment thereto filed on April 2,
        1998 and an amendment thereto filed on June 22, 1998, including all
        material incorporated by reference therein;
    
 
   
     3. Our Quarterly Report on Form 10-Q for the fiscal quarter ended March 31,
        1998, filed on May 15, 1998 and an amendment thereto filed on July 6,
        1998, including all material incorporated by reference therein;
    
 
   
     4. Our Quarterly Report on Form 10-Q for the fiscal quarter ended June 30,
        1998, filed on August 14, 1998, including all material incorporated by
        reference therein;
    
 
   
     5. Our Quarterly Report on Form 10-Q for the fiscal quarter ended September
        30, 1998, filed on November 13, 1998, including all material
        incorporated by reference therein;
    
 
   
     6. Our Current Report on Form 8-K, filed on September 2, 1998, including
        all material incorporated by reference therein; and
    
 
   
     7. The description of the common stock contained in our Registration
        Statement on Form 8-A.
    
 
   
     8. The Proxy Statement for our 1998 Annual Meeting of Shareholders.
    
 
     You may request a copy of these filings, at no cost to you, by writing or
telephoning us at:
 
       Aradigm Corporation
       Investor Relations Department
       3929 Point Eden Way
       Hayward, California 94545
       Telephone: (510) 265-9000
 
                                       13
<PAGE>   15
 
     You should rely only on the information incorporated by reference or
provided in this prospectus. We have authorized no one to provide you with
different information. You should not assume that the information in this
prospectus is accurate as of any date other than the date on the front of the
document.
 
                                USE OF PROCEEDS
 
     The Company will not receive any proceeds from the sale of common stock by
any selling shareholder in this offering.
 
                                       14
<PAGE>   16
 
                              SELLING SHAREHOLDERS
 
     In January 1999, we agreed to sell 2,428,338 shares of Common Stock of the
Company upon meeting certain closing conditions, including the effectiveness of
this registration statement to certain purchasers pursuant to a Common Stock
Purchase Agreement dated January 27, 1999 by and among us and the Purchasers
named therein. In connection with this sale, we agreed to file a registration
statement with the SEC covering the shares issued to each selling shareholder
and agreed to indemnify each selling shareholder against claims made against
them arising out of, among other things, statements made in this registration
statement. We have agreed to cause this registration statement to remain
effective until (a) all the common stock has been re-sold (b) all the common
stock may be re-sold in a three-month period under Rule 144 or (c) two years
after the closing of the transactions contemplated in the Common Stock Purchase
Agreement, whichever is earlier.
 
     The following table provides certain information with respect to shares of
common stock held and to be offered under this prospectus from time to time by
each selling shareholder. Because the selling shareholders may sell all or part
of their common stock pursuant to this prospectus, and this offering is not
being underwritten on a firm commitment basis, only an estimate can be given as
to the number and percentage of shares of common stock that will be held by each
selling shareholder upon termination of this offering. See "Plan of
Distribution."
 
     We are unaware of any material relationship between any of the selling
shareholders and us in the past three years other than as a result of the
ownership of the shares of common stock.
 
   
<TABLE>
<CAPTION>
                                         SHARES BENEFICIALLY                     SHARES BENEFICIALLY
                                            OWNED PRIOR TO                           OWNED AFTER
                                               OFFERING           NUMBER OF          OFFERING(2)
                                        ----------------------   SHARES BEING    --------------------
         SELLING SHAREHOLDER             NUMBER     PERCENT(1)     OFFERED       NUMBER    PERCENT(1)
         -------------------            ---------   ----------   ------------    -------   ----------
<S>                                     <C>         <C>          <C>             <C>       <C>
The Kaufmann Fund, Inc................  1,044,167       *           666,667      377,500       *
Invesco Global Health Services Fund...    380,952       *           380,952            0       *
Biotechnology Investments Limited.....    350,000       *           350,000            0       *
H & Q Healthcare Investors............    225,000       *           225,000            0       *
Bank Invest...........................    300,000       *           200,000      100,000       *
State of Oregon PERS/ZCG..............    390,000       *           160,000      230,000       *
H & Q Life Sciences Investors.........    125,000       *           125,000            0       *
Pharma w/Health FCP...................    100,000       *           100,000            0       *
Public Employee Retirement System of
  Idaho...............................    150,000       *            50,000      100,000       *
Delta Opportunity Fund, Ltd...........     47,619       *            47,619            0       *
The Magee/Bernhard LLC................     25,000       *            25,000            0       *
NFIB Employee Pension Trust...........     25,000       *            25,000            0       *
The A&JS Family LLC...................     15,000       *            15,000            0       *
Wells Family LLC......................     15,000       *            15,000            0       *
Morgan Trust Co. of the Bahamas Ltd.
  as trustee u/a/d 11/30/93...........     15,000       *            15,000            0       *
Roanoke College.......................     15,000       *            15,000            0       *
Amherst College.......................     10,000       *            10,000            0       *
Alza Corporation Retirement Plan......     12,000       *             2,000       10,000       *
Wolfson Investment Partners LP........      1,100       *             1,100            0       *
         TOTAL........................                            2,428,338
</TABLE>
    
 
- -------------------------
 *  Less than one percent.
 
   
(1) Percentage of ownership is based on 12,171,584 shares of common stock
    outstanding on March 5, 1999.
    
 
(2) Assumes the sale of all shares offered hereby.
 
                                       15
<PAGE>   17
 
                              PLAN OF DISTRIBUTION
 
     We are registering the shares of common stock offered by the selling
shareholders pursuant to contractual registration rights contained in the Common
Stock Purchase Agreement. The selling shareholders may sell their shares on the
Nasdaq National Market, in private transactions or in a combination of such
methods of sale. The selling shareholders may sell their shares at market prices
prevailing at the time of sale, at prices related to such prevailing market
prices or at negotiated or at fixed prices. For their shares, the selling
shareholders will receive the purchase price of the shares sold less any agents'
commissions or underwriters' discounts and other related expenses. If the
selling shareholders sell shares to or through brokers or dealers, they may pay
the brokers or dealers compensation in the form of discounts, concessions or
commissions. We will not receive any proceeds from the sale of shares by the
selling shareholders.
 
     The selling shareholders and any persons who participate in the sale of the
shares may be deemed to be "underwriters" as defined in the Securities Act, and
any discounts, commissions or concessions received by them and any provided
pursuant to the sales of shares by them might be deemed underwriting discounts
and commissions under the Securities Act.
 
     In order to comply with the securities laws of certain states, if
applicable, the common stock may be sold in such jurisdictions only through
registered or licensed brokers or dealers. In addition, in certain states the
common stock may not be sold unless it has been registered or qualified for sale
or an exemption from registration or qualification requirements is available and
is complied with.
 
     We have agreed in the Common Stock Purchase Agreement to register the
shares of our common stock received by the selling shareholders pursuant to the
Common Stock Purchase Agreement under applicable federal and state securities
laws under certain circumstances and at certain times. Pursuant to the Common
Stock Purchase Agreement, we have filed a registration statement related to the
shares offered hereby and have agreed to keep such registration statement
effective until (a) all the common stock has been re-sold (b) all the common
stock may be re-sold in a three-month period under Rule 144 or (c) two years
after the closing of the transactions contemplated in the Common Stock Purchase
Agreement, whichever is earlier.
 
     We are not paying any underwriting commissions or discounts in this
offering. We will, however, pay for the expenses incurred in this offering. We
estimate these expenses to be approximately $25,000. We have agreed to indemnify
the selling shareholders and certain other persons against certain liabilities,
including liabilities under the Securities Act.
 
                                 LEGAL MATTERS
 
     The validity of the common stock offered hereby will be passed upon for the
Company by Cooley Godward LLP, Palo Alto, California.
 
                                    EXPERTS
 
     Ernst & Young LLP, independent auditors, have audited our financial
statements included in our Annual Report on Form 10-K for the year ended
December 31, 1997, as set forth in their report, which is incorporated in this
prospectus by reference. Our financial statements are incorporated by reference
in reliance on their report, given on their authority as experts in accounting
and auditing.
 
                                       16
<PAGE>   18
 
- ------------------------------------------------------
- ------------------------------------------------------
 
     WE HAVE AUTHORIZED NO ONE TO GIVE ANY INFORMATION OR TO MAKE ANY
REPRESENTATIONS THAT ARE NOT CONTAINED IN THIS PROSPECTUS. YOU SHOULD RELY ONLY
ON THE INFORMATION INCORPORATED BY REFERENCE OR PROVIDED IN THIS PROSPECTUS. YOU
MUST NOT RELY ON ANY UNAUTHORIZED INFORMATION.
 
     THIS PROSPECTUS DOES NOT OFFER TO SELL OR BUY ANY SHARES IN ANY
JURISDICTION WHERE IT IS UNLAWFUL. YOU SHOULD NOT ASSUME THAT THE INFORMATION IN
THIS PROSPECTUS IS ACCURATE AS OF ANY DATE OTHER THAN THE DATE ON THE FRONT OF
THE DOCUMENT.
 
                           -------------------------
 
                               TABLE OF CONTENTS
 
<TABLE>
<CAPTION>
                                        PAGE
                                        ----
<S>                                     <C>
The Company...........................    2
Risk Factors..........................    2
Forward-Looking Statements............   12
Where You Can Find More Information...   12
Use of Proceeds.......................   14
Selling Shareholders..................   15
Plan of Distribution..................   16
Legal Matters.........................   16
Experts...............................   16
</TABLE>
 
- ------------------------------------------------------
- ------------------------------------------------------
- ------------------------------------------------------
- ------------------------------------------------------
 
                                2,428,338 SHARES
 
                                  COMMON STOCK
                                    ARADIGM
                                  CORPORATION
                           -------------------------
 
                                   PROSPECTUS
                           -------------------------
   
                                 MARCH   , 1999
    
 
- ------------------------------------------------------
- ------------------------------------------------------
<PAGE>   19
 
                                    PART II
 
                     INFORMATION NOT REQUIRED IN PROSPECTUS
 
ITEM 14. OTHER EXPENSES OF ISSUANCE AND DISTRIBUTION
 
     The following table sets forth all expenses payable by Aradigm Corporation
in connection with the sale of the shares of common stock being registered. All
of the amounts shown are estimates except for the registration fee. None of
these expenses will be paid by the selling shareholders.
 
<TABLE>
<S>                                                           <C>
Securities Act Registration Fee.............................  $ 7,430
Legal fees and expenses.....................................   10,000
Accounting fees and expenses................................    2,500
Printing and engraving expenses.............................    2,500
Miscellaneous...............................................    2,570
                                                              -------
          Total.............................................  $25,000
                                                              =======
</TABLE>
 
ITEM 15. INDEMNIFICATION OF OFFICERS AND DIRECTORS
 
     The Company's amended and Restated Articles of Incorporation and Bylaws
include provisions to (i) eliminate the personal liability of its directors for
monetary damages resulting from breaches of their fiduciary duty to the extent
permitted by California law and (ii) permit the Company to indemnify its
directors and officers, employees and other agents to the fullest extent
permitted by the California Corporations Code (the "Corporations Code").
Pursuant to Section 317 of the Corporations Code, a corporation generally has
the power to indemnify its present and former directors, officers, employees and
agents against any expenses incurred by them in connection with any suit to
which they are, or are threatened to be made, a party by reason of their serving
in such positions so long as hey acted in good faith and in a manner they
reasonably believed to be in, or not opposed to, the best interests of a
corporation, and with respect to any criminal action, they had no reasonable
cause to believe their conduct was unlawful. The Company believes that these
provisions are necessary to attract and retain qualified persons as directors
and officers. These provisions do not eliminate liability for breach of the
director's duty of loyalty to the Company or its shareholders, for acts or
omissions not in good faith or involving intentional misconduct or knowing
violations of law, for any transaction from which the director derived an
improper personal benefit or for any willful or negligent payment of any
unlawful dividend.
 
     The Company has entered into agreements with its directors and executive
officers that require the Company to indemnify such persons against expenses,
judgments, fines, settlements and other amounts that such person becomes legally
obligated to pay (including expenses of a derivative action) in connection with
any proceeding, whether actual or threatened, to which any such person may be
made a party by reason of the fact that such person is or was a director or
officer of the Company or any of its affiliated enterprises, provided such
person acted in good faith and in a manner such person reasonably believed to be
in or not opposed to the best interests of the Company. The indemnification
agreements also set forth certain procedures that will apply in the event of a
claim for indemnification thereunder.
 
                                      II-1
<PAGE>   20
 
ITEM 16. EXHIBITS
 
(a) EXHIBITS
 
   
<TABLE>
<CAPTION>
    EXHIBIT
    NUMBER                      DESCRIPTION OF DOCUMENT
    -------                     -----------------------
    <C>       <S>
     3.1(1)   Amended and Restated Articles of Incorporation of the
              Company.
     3.2(1)   Bylaws of the Company.
     4.1      Reference is made to Exhibits 3.1 and 3.2.
     4.2(2)   Common Stock Purchase Agreement between the Company and the
              Purchasers of Common Stock listed on Exhibit A thereto,
              dated January 27, 1999.
     5.1(2)   Opinion of Cooley Godward LLP.
    23.1      Consent of Ernst & Young LLP, Independent Auditors.
    23.2(2)   Consent of Cooley Godward LLP (included in its opinion filed
              as Exhibit 5.1).
    24.1(2)   Power of Attorney. Reference is made to page II-4.
</TABLE>
    
 
- -------------------------
(1) Incorporated by reference to the indicated exhibit in the Company's
    Registration Statement (No. 333-4236), as amended.
 
   
(2) Previously filed.
    
 
ITEM 17. UNDERTAKINGS
 
     The undersigned registrant hereby undertakes:
 
     (1) To file, during any period in which offers or sales are being made, a
post-effective amendment to this registration statement:
 
          (i)  To include any prospectus required by section 10(a)(3) of the
     Securities Act of 1933;
 
          (ii)  To reflect in the prospectus any facts or events arising after
     the effective date of the registration statement (or the most recent
     post-effective amendment thereof) which, individually or in the aggregate,
     represent a fundamental change in the information set forth in the
     registration statement. Notwithstanding the foregoing, any increase or
     decrease in volume of securities offered (if the total dollar value of
     securities offered would not exceed that which was registered) and any
     deviation from the low or high end of the estimated maximum offering range
     may be reflected in the form of prospectus filed with the Commission
     pursuant to Rule 424(b) if, in the aggregate, the changes in volume and
     price represent no more than a 20% change in the maximum aggregate offering
     price set forth in the "Calculation of Registration Fee" table in the
     effective registration statement.
 
          (iii) To include any material information with respect to the plan of
     distribution not previously disclosed in the registration statement or any
     material change to such information in the registration statement.
 
     (2) That, for the purpose of determining any liability under the Securities
Act of 1933, each such post-effective amendment shall be deemed to be a new
registration statement relating to the securities offered therein, and the
offering of such securities at that time shall be deemed to be the initial bona
fide offering thereof.
 
                                      II-2
<PAGE>   21
 
     (3) To remove from registration by means of a post-effective amendment any
of the securities being registered which remain unsold at the termination of the
offering.
 
     The undersigned registrant hereby undertakes that, for purposes of
determining any liability under the Securities Act of 1933, each filing of the
registrant's annual report pursuant to section 13(a) or section 15(d) of the
Securities Exchange Act of 1934 (and, where applicable, each filing of an
employee benefit plan's annual report pursuant to section 15(d) of the
Securities Exchange Act of 1934) that is incorporated by reference in the
registration statement shall be deemed to be a new registration statement
relating to the securities offered therein, and the offering of such securities
at that time shall be deemed to be the initial bona fide offering thereof.
 
     The undersigned registrant hereby undertakes to deliver or cause to be
delivered with the prospectus, to each person to whom the prospectus is sent or
given, the latest annual report to security holders that is incorporated by
reference in the prospectus and furnished pursuant to and meeting the
requirements of Rule 14a-3 or Rule 14c-3 under the Securities Exchange Act of
1934; and, where interim financial information required to be presented by
Article 3 of Regulation S-X are not set forth in the prospectus, to deliver, or
cause to be delivered to each person to whom the prospectus is sent or given,
the latest quarterly report that is specifically incorporated by reference in
the prospectus to provide such interim financial information.
 
     Insofar as indemnification for liabilities arising under the Securities Act
of 1933 may be permitted to directors, officers and controlling persons of the
registrant pursuant to the foregoing provisions, or otherwise, the registrant
has been advised that in the opinion of the Securities and Exchange Commission
such indemnification is against public policy as expressed in the Act and is,
therefore, unenforceable. In the event that a claim for indemnification against
such liabilities (other than the payment by registrant of expenses incurred or
paid by a director, officer or controlling person of registrant in the
successful defense of any action, suit or proceeding) is asserted by such
director, officer or controlling person in connection with the securities being
registered, registrant will, unless in the opinion of its counsel the matter has
been settled by controlling precedent, submit to a court of appropriate
jurisdiction the question whether such indemnification by it is against public
policy as expressed in the Act and will be governed by the final adjudication of
such issue.
 
                                      II-3
<PAGE>   22
 
                                   SIGNATURES
 
   
     Pursuant to the requirements of the Securities Act of 1933, the Registrant
certifies that it has reasonable grounds to believe that it meets all of the
requirements for filing on Form S-3 and has duly caused this Registration
Statement on Form S-3 to be signed on its behalf by the undersigned, thereunto
duly authorized, in the City of Hayward, State of California, on this 8th day of
March, 1999.
    
 
                                          ARADIGM CORPORATION
 
                                          By: /s/ RICHARD P. THOMPSON
                                          --------------------------------------
                                                   Richard P. Thompson
                                          President, Chief Executive Officer and
                                                         Director
 
   
     KNOW ALL PERSONS BY THESE PRESENTS, that each person whose signature
appears below hereby constitutes and appoints jointly and severally, Richard P.
Thompson and Mark A. Olbert, and each one of them, his or her attorneys-in-fact,
each with the power of substitution, for him or her in any way and all
capacities, to sign any and all amendments (including post-effective amendments
and registration statements filed pursuant to Rule 462) to this Registration
Statement on Form S-3 and to file the same, with exhibits thereto and other
documents in connection therewith, with the Securities and Exchange Commission,
hereby ratifying and confirming all that each said attorneys-in-fact, or his
substitute or substitutes, may do or cause to be done by virtue hereof. Pursuant
to the requirements of the Securities Act of 1933, this Registration Statement
has been signed below by the following persons on behalf of the Registrant and
in the capacities indicated on the 8th day of March, 1999.
    
 
   
<TABLE>
<CAPTION>
                      NAME                                  TITLE                DATE
                      ----                                  -----                ----
<S>                                               <C>                        <C>
 
            /s/ RICHARD P. THOMPSON                   President, Chief       March 8, 1999
- ------------------------------------------------      Executive Officer
              Richard P. Thompson                       and Director
                                                    (Principal Executive
                                                          Officer)
 
               /s/ MARK A. OLBERT                  Vice President, Finance   March 8, 1999
- ------------------------------------------------   and Administration and
                 Mark A. Olbert                    Chief Financial Officer
                                                  (Principal Financial and
                                                     Accounting Officer)
 
           /s/ REID M. RUBSAMEN, M.D.              Vice President, Medical   March 8, 1999
- ------------------------------------------------   Affairs, Secretary and
             Reid M. Rubsamen, M.D.                       Director
</TABLE>
    
 
                                      II-4
<PAGE>   23
 
   
<TABLE>
<CAPTION>
                      NAME                                  TITLE                DATE
                      ----                                  -----                ----
<S>                                               <C>                        <C>
         /s/ BURTON J. MCMURTRY, PH.D.                    Director           March 8, 1999
- ------------------------------------------------
           Burton J. McMurtry, Ph.D.
 
             /s/ GORDON W. RUSSELL                        Director           March 8, 1999
- ------------------------------------------------
               Gordon W. Russell
 
         /s/ FRED E. SILVERSTEIN, M.D.                    Director           March 8, 1999
- ------------------------------------------------
           Fred E. Silverstein, M.D.
 
             /s/ VIRGIL D. THOMPSON                       Director           March 8, 1999
- ------------------------------------------------
               Virgil D. Thompson
</TABLE>
    
 
                                      II-5
<PAGE>   24
 
                               INDEX TO EXHIBITS
 
   
<TABLE>
<CAPTION>
EXHIBIT
NUMBER                      DESCRIPTION OF DOCUMENT
- -------                     -----------------------
<C>       <S>
3.1(1 )   Amended and Restated Articles of Incorporation of the
          Company.
3.2(1 )   Bylaws of the Company.
4.1       Reference is made to Exhibits 3.1 and 3.2.
4.2(2 )   Common Stock Purchase Agreement between the Company and the
          Purchasers of Common Stock listed on Exhibit A thereto,
          dated January 27, 1999.
5.1(2 )   Opinion of Cooley Godward LLP.
23.1      Consent of Ernst & Young LLP, Independent Auditors.
23.2(2)   Consent of Cooley Godward LLP (included in its opinion filed
          as Exhibit 5.1).
24.1(2)   Power of Attorney. Reference is made to page II-4.
</TABLE>
    
 
- -------------------------
(1) Incorporated by reference to the indicated exhibit in the Company's
    Registration Statement (No. 333-4236), as amended.
 
   
(2) Previously filed.
    

<PAGE>   1

                                                                    EXHIBIT 23.1



               CONSENT OF ERNST & YOUNG LLP, INDEPENDENT AUDITORS



        We consent to the reference to our firm under the caption "Experts" in
the Registration Statement on Form S-3 and related Prospectus of Aradigm
Corporation for the registration of 2,428,338 shares of its Common Stock and to
the incorporation by reference therein of our report dated February 12, 1999,
with respect to the financial statements of Aradigm Corporation included in its
Annual Report on Form 10-K for the year ended December 31, 1998 filed with the
Securities and Exchange Commission.



                                                   ERNST & YOUNG LLP

Palo Alto, California
March 8, 1999



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