This doesnt really help…but I have had a similar thing.
I made a 30 commercial for television, which had a crawl along the bottom. This looked fine in AE and also when I imported it into FCP. But when I used compressor to make it m2v, or if I exported a self contained QT into iDVD or even DVDSP, there was huge glitching and/or fuzziness (as if the fields were out of sync) on the text that was crawling.
When I dumped the animation to tape – for broadcast – it was fine, but when I burnt the animation to DVD for our clients to view I couldnt get rid of it, and I looked like an idiot and just had to assure them everything was fine.
I never managed to sort the problem – if anyone knows how to help would be much appreciated.
Xavier