I'm going to use English as an example here, but adjust if you're trying to do this for another language. But, maybe sure the stereo track is FIRST, or the iPad won't play it (in Apple's app). If you also want to play them on an Apple TV, etc, in surround-sound, include a second audio track (AC-3 passthru is usually the best here). If you also want to play your movies on your iPhone/iPad, you MUST include a stereo track. I think the iTunes preset includes this, but I wanted to highlight this important part. The hardest thing I found was getting surround-sound correct. You should be able to easily make files compatible with iTunes, VLC, etc. HB includes some Apple and iTunes presets.
