Well, your in luck, its easy enough for beagle to be compiled against sqlite3, just delete all the sqlite2 stuff off your computer and reinstall beagle, and you should be ok. This might be a packaging issue (I'll look into it) but you should be good.
** Changed in: beagle (Ubuntu)
Status: Needs Info => Confirmed
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https://launchpad.net/bugs/52589
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