NL$25: Should I make a play here?

[SpecT]

OK, we've both got $25 stacks, not reads on this bro but he seems good

I have A[img]/images/graemlins/diamond.gif[/img]Q[img]/images/graemlins/diamond.gif[/img] on the button,it's folded to me so i raise to $1.

SB folds and BB re-raises to $3, I call.

Flop ($6.25): K[img]/images/graemlins/spade.gif[/img]2[img]/images/graemlins/heart.gif[/img]3[img]/images/graemlins/heart.gif[/img]
BB bets out $3, I re-raise to $12

now, should i be making this play?... $3? wtf? what a wierd bet with a flushdraw on board. I think his most likely hands here are JJ, QQ or AK. What does this bet mean? That he has the underpair and is taking a shot at the pot? Or that he's setting a trap, although this seems less likely as the flushdraw is out their and he's not really protecting his hand (although A[img]/images/graemlins/heart.gif[/img]K[img]/images/graemlins/heart.gif[/img] would make sense). A raise here would get him off his underpair... but does he have AA, KK,AK enough for this play to be -EV?
This isn't a normal hand post i know... but I thought it would be interesting to discuss and I really want your guys imput on it.