Do you have the Out Of Sync problem with other video's other than the ones you made? The reason I ask is because most Video formats have/use the "key" or "Index" options. This should sync the Audio and Video together automatically. A common use of this is to sync every 15-30 seconds.
What video Format are you encoding in?
Check the options and see if there is anything like what I mentioned.
On another note:
http://www.aximsite.com/boards/multi...-out-sync.html
These guys and Google says that Pocket DVD Studio seems to have this particular problem. Infact in the thread above the one guy switched to FairUse
Later,
phaZed