I am having similar problems and can give you details to my project. I have several MPGs with audio that I imported and edited in AE6.5 on my PC. I have tried rendering the comp out as a .MOV, .AVI and .MPG. I have tried rendering them out at 640×480 and 320×240. I have tried uncompressed and various degrees of compression. The total time of the video is 7:17. I have tried just doing the entire piece as well as about 1 minute’s worth of rendering.
It seems that no matter what combination of reducing the file size or type of composition, I have the same skips in audio at about the same places. But when I play the original MPGs used in AE, they play fine. My final pieces have been from 500Mb to 11Gb in size. I have also taken the one .MOV and brought it into Sorensen Squeeze to convert into a 50Mb MPG, but the skips were the same (I was thinking that perhaps the movie itself didn’t have the skips, it was just the playback).
Please help me if you can.
Thank you!
Sincerely,
Darcie