I haven't seen any of the issues you describe, but then again the Family Guy dvds I've been ripping to the 770 only have one soundtrack as far as I know.

DVD Shrink allows you to remove the soundtracks you don't want when ripping, which may be useful for the problems you had with ep 1 & 3. I found I had to rename the files it created to mpg, as Media Converter failed to convert them using the default file extension.