<?xml version="1.0"?>
<ownershipDocument>

    <schemaVersion>X0303</schemaVersion>

    <documentType>4/A</documentType>

    <periodOfReport>2009-12-28</periodOfReport>

    <dateOfOriginalSubmission>2010-01-06</dateOfOriginalSubmission>

    <notSubjectToSection16>0</notSubjectToSection16>

    <issuer>
        <issuerCik>0000844059</issuerCik>
        <issuerName>PATRIOT TRANSPORTATION HOLDING INC</issuerName>
        <issuerTradingSymbol>PATR</issuerTradingSymbol>
    </issuer>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001190089</rptOwnerCik>
            <rptOwnerName>BAKER JOHN D II</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>501 RIVERSIDE AVENUE</rptOwnerStreet1>
            <rptOwnerStreet2>SUITE 500</rptOwnerStreet2>
            <rptOwnerCity>JACKSONVILLE</rptOwnerCity>
            <rptOwnerState>FL</rptOwnerState>
            <rptOwnerZipCode>32202</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>1</isDirector>
            <isOfficer>0</isOfficer>
            <isTenPercentOwner>1</isTenPercentOwner>
            <isOther>0</isOther>
        </reportingOwnerRelationship>
    </reportingOwner>

    <nonDerivativeTable>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>1500</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                    <footnoteId id="F1"/>
                </directOrIndirectOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>0</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See footnote.</value>
                    <footnoteId id="F2"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>29100</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See footnote.</value>
                    <footnoteId id="F3"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>6667</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See footnote.</value>
                    <footnoteId id="F4"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>0</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See footnote.</value>
                    <footnoteId id="F5"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
        <nonDerivativeHolding>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>29099</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See footnote.</value>
                    <footnoteId id="F6"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeHolding>
    </nonDerivativeTable>

    <footnotes>
        <footnote id="F1">This amendment is being filed to correct information contained in the Form 4 filed for Mr. Baker on January 6, 2010. This line item corrects the number of shares held by Mr. Baker directly.</footnote>
        <footnote id="F2">In the January 6, 2010 filing, Mr. Baker repoted beneficial ownership of 22,238 shares held by the Edward L. Baker Irrevcoable Trust.  These shares have been distributed to an adult beneficiary, so beneficial ownership of these shares is no longer attributable to Mr. Baker.</footnote>
        <footnote id="F3">Shares held by John D. Baker II Irrevocable Trust. The trust is admininstered by the reporting person's brother as trustee and is for the benefit of the reporting person's son, John D. Baker III.  The reporting person disclaims beneficial interest in these shares.  This amendment reflects a previously reported gift of 220 shares from Mr. Baker's living trust to this trust.</footnote>
        <footnote id="F4">In the January 6, 2010 filing, Mr. Baker reported 10,000 shares as owned by the John D. Baker II Irrevocable Trust #1.  The trust is administered by an independent trustee and is for the benefit of the reporting person's spouse and children.  The reporting person disclaims any beneficial interest in these shares.  This amendment reflects the prior distribution of 3,333 shares held by the trust to an adult beneficiary.</footnote>
        <footnote id="F5">In the January 6, 2010 filing, Mr. Baker reported 6,642 shares held by the John D. Baker II Irrevocable Trust #2.  These shares have been distributed to the adult beneficiary of the trust, so beneficial ownership of these shares are no longer attributable to Mr. Baker.</footnote>
        <footnote id="F6">Shares held by Susan Anne Baker Irrevocable Trust. The trust is administered by the reporting person's brotehr as trustee and is for the benefit of the reporting person's daughter, Susan Anne Baker.  The reporting person disclaims beneficial interest in these shares.  This amendment reflects a previously reported gift of 220 shares from Mr. Baker's living trust to this trust.</footnote>
    </footnotes>

    <ownerSignature>
        <signatureName>/s/ Daniel B. Nunn, Jr., attorney in fact for John D. Baker II</signatureName>
        <signatureDate>2010-01-12</signatureDate>
    </ownerSignature>
</ownershipDocument>
