Imported audio has green line and goes out of sync.

What the heck is FCP doing to my audio!!!
I render out a movie and treat it in After Effect (no speed changes) and bring the movie back into FCP in a new seq, I then take the audio exported from the same original seq the video was exported from in FCP and it is out of sync! It drifts, and has the green line on if meaning to me that FCP is changing it in some way, this is PAL 48k and was always PAL 48k.
The only way I can get the audio to sync is to render out a whole movie again and just use the sound from it, then it is in sync with my original.
Any one know what is up?
Also, when I import from an aif captured in Pro Tools the waveform is not in sync with the sound I am hearing! This also has a green line on it when placed in the timeline as if the sample rate is not correct but it is 48K in a 48k seq.
Mark

Hi JohnDoe2009 - firstly, extracting the audio is not necessary in your case. Simply mute the video's audio, by reducing its level to zero - that is what actually happens when you extract the audio, after all.
It is my experience also, that locking audio clips to particular video clips is not fail-safe if further cropping is done afterwards, especially if that cropping is fairly substantial. Where possible, do the syncing after all crop-editing has been completed.
As a last check I always review the syncing before finalising the movie.

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When I export the video as an H.264 file, the audio gets out of sync with the video by 13 frames! But that's not all... It doesn't happen to the entire audio track. There's about 50 minutes in the middle of the video where the audio goes out of sync. The audio at the beginning and ending of the video is lined up perfectly in sync. It's just the middle section that gets screwy.
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OK, I figured out how to fix it:
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Imported audio has green line and goes out of sync.

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