Ok some updates for those of you who haven't been following the threads on fanres:

Alien

Doombot noticed an error on a different project I was working on. It looked like detail and grain had been erased in my encode. Long story short. Using the file type I was created errors converting back and forth and destroyed grain. This also happened on Alien. So I went back to BD encoded it to a new AVI and started over. That fixed the problem but it means I have to regrade the movie again. That's not as bad as it sounds since I have all the regrade info for the original files, so instead of re-coloring I just need to re-apply the colors. Still it will take a few weeks to re-do.

Otherwise the soundtracks are finally all in sync and ready to go