Jonno said:

The guy who made MultiAVCHD wrote up this tutorial on creating branched BD playlists:

http://forum.doom9.org/showthread.php?t=154815

Basically you create each 'chunk' as a separate BD folder, then use MultiAVCHD to link them into alternative playlists (then use BDedit to remove redundant elements).

I've used this technique to link separate elements on a multi-part Blu-ray (e.g. a new logo before the main feature) - it's the best way I've found to create such compilations without actually editing them together (and thus reencoding). Might be worth a try, but results do vary from one BD player to another.

And this is where a problem comes up, when doing these BD projects you want to have your BD as compatible as it can be with all players and all PS3's all over the World, this to me is very important with all our BD releases, we are trying something all new with a project we are doing with having 2 versions of the same movie on 1 BD50 but they both will use the same audio and subs, should be interesting to say the least, and fun!