Everything I've read, and it's pretty much just that, read, is that the boat tails pros are: easier to seat in the brass when reloading, better long range (400+yard) performance; cons are: yawing at exiting of muzzel, inferior gas seal compared to flat base. Terminal performance differences should be negligable assuming all else is equal (overall construction type - i.e. FMJ, hollow point, or soft point; jacket thickness; velocity at impact; shot placement; etc).
At normal hunting ranges (<400 yards) the advantages of the boat would seem to be inconsequential from a ballistics standpoint. Otherwise, what matters more to you - ease of seating the bullet in the brass, or a better gas seal as the bullet is accellerated down the barrel. Not being a reloader, the former doesn't matter to me, and the potential detrimental effects of the latter don't matter too much more.
Bottom line, for me anway (YMMV), is that I don't give a hoot if my bullets are flat base or boat tail. I'll choose which ever seems best suited for a given application based on experimental results.