3.3v and 5v, oh my!

Robin2:
Let's go back to basics. Why have you chosen a Li-ion battery? Maybe it is not the best choice.

...R

I'm going to be trying to squeeze everything onto a relatively small board and don't want to make room for a 9 volt or four AA's. Plus, I'm planning to crank out a few dozen of these, and I'd rather buy a few dozen Li-Ions than 48 AA's. And I'd like these to be rechargeable so I don't have to keep replacing them.

Aren't those the reasons anyone chooses a Li-Ion?