Is there a way to re-compress the audio of a clip without re-exporting the video?

Hey guys, I have 500 clips that took me 2 days to render to ProRes just to find out that the audio is not the right format. What do i do now?
I don't want to have to re-export all those 500 files again and wait 2 more days. Is there a way to run those files through an application (either in compressor or something else) that will re-render the audio in the right format without doing anything to the video?
I know how to swap the audio of a file using QT Player 7 but I only know how to do that one file at a time. Obviously, I wouldn't even think about doing that 500 times... I'll go nuts.
What are my other options? Adobe Media Encoder? MPEG Streamclip? VLC? Anything at all?
Any help is much appreciated

Well this workflow should work but I don't know if there might be problems down the road.
Bring all your prores files with the problem audio into compressor.  Apply the audio 48k16 bit preset to them.  This will create individual aiff files with fcp friendly settings.  
Bring the resulting aiffs into fcp.  Select the video qt and audio aiff in the browser for one clip and control click on one of them and choose merge clip.  This should create new clips with the good audio as channels 3 and 4 (assuming the original files have 2 channels of audio). 
You should then be able to edit the merged clip into the timeline and by just patching channels 3 and 4 (the 48k16bit audio tracks)  into your timeline and unpatching channels 1 and 2.  , you should not need to render the audio.
Try testing this workflow on one clip and see if everything works before doing all of the clips.
If any of this is not clear or you need help with any of this, post back.
Frankly, you might be just as easy and safer to reconvert all the clips with the audio enabled to 48k16bit in compressor.    You could also edit each clip into it's own sequence, replace the ng audio with aiffs made as I described above and then export reference quicktimes to edit with. 

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