Media Encoder is rendering an older version of my Premiere timeline.

This has happened to me on a few occasions, where I have a dynamically linked After Effects comp in my Premiere timeline, the changes I make appear as they should in the Premiere timeline, but when I queue it to Media Encoder or render directly through Premiere, it renders the older version of the AE comp, as if it thinks nothing has changed. This happens even after cleaning the cache, saving a new copy and restarting premiere.
The only way I've managed to fix it, is by saving a new copy of the Premiere project file over the temp file submitted to Encoder.
This is how it looks on my timeline (Correct):
How it looks when I queue through Encoder (Incorrect):
Any help on how to avoid this in the future would be much appreciated!
Cheers,
S

I thought you had something working after you installed FFDshow tryout.
It would be helpful if you could upload one of your files that you can't convert to a file sharing website. Then others can download the file and work with it on their machine to see if they can convert it.
I use MediaFire's (http://www.mediafire.com) free plan to upload and share files. For example, http://www.mediafire.com/?uhpmob5nc1w6q is a link to one of my files: "Kodak Zi8 720 30p." It's not a direct link.

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            <Build>7601 Service Pack 1</Build>
            <Product>(0x3): Windows 7 Home Premium</Product>
            <Edition>HomePremium</Edition>
            <BuildString>7601.18247.amd64fre.win7sp1_ ... private data erased here ...</BuildString>
            <Revision>1130</Revision>
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            <Architecture>X64</Architecture>
            <LCID>1031</LCID>
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            <ParentProcessCmdLine>&quot;C:\Program Files\Adobe\Adobe Media Encoder CC\32\dynamiclinkmanager.exe&quot;</ParentProcessCmdLine>
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            <Parameter0>Adobe Media Encoder.exe</Parameter0>
            <Parameter1>7.2.0.43</Parameter1>
            <Parameter2>52a18991</Parameter2>
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            <Parameter4>12.0.12.2</Parameter4>
            <Parameter5>5073ba44</Parameter5>
            <Parameter6>c0000005</Parameter6>
            <Parameter7>00000000000bfd76</Parameter7>
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            <Parameter2>1031</Parameter2>
            <Parameter22>4c50</Parameter22>
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            <Parameter24>28b8</Parameter24>
            <Parameter25>28b834131666732fe13a476b5fa8febe</Parameter25>
        </DynamicSignatures>
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            <MID> ... private data erased here ... </MID>
            <MarkerFile>1043_ASUSTEK_G74SX_V20_WIN7</MarkerFile>
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