getting the audio to sync is really tricky. you might want to check
this thread for some useful information (esp Author85's post). I could be wrong, maybe your new audio will just lock up first try from beginning to end (I wish you luck!).
I don't think you'll have to worry about transcoding to WMV, main thing that could go wrong is re-encoding the mpeg-2 video to mpeg-2 when you just want a direct copy of the original. Hopefully some author will post here and give some tips on how to avoid that.
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