Merge several itunes libraries

Hi All,
I have multiple iTunes library on the same imac. I thought it would be the best way to manage a very large music library. Howver there are several drawbacks:
newly applications purchased from an idevice are downloaded automatically in the library you open thereafter. As a result, the purchased apps are spread over mutiple libraries
it is obviously impossible to get a piece of music from one library and another one from another library in the same idevice.
Does anyone have any idea about how to manage that?
Alternatively, I am considering merging all these libraries into a single one. How to do that?
Thanks for your inputs.

syncOtunes - http://homepage.mac.com/oligrob/syncOtunes/syncOtunes.html
PowerTunes - http://www.fatcatsoftware.com/powertunes/ (commercial software)
http://forums.ilounge.com/itunes-mac-pc/234406-merge-combine-two-itunes-librarie s-into-one.html#post1274671
I am unfamiliar with using mobile devices so I can't answer that part.

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