'So you win more pots with the raises, I'd say.
But the trouble is if you are holding 99 and the flop comes up AK9 and you bet then you're probably going to have hard time building up a pot). '

If you've PFR and get called or you call a PFR with 99 this is exactly the flop you want. You should be able to build pots with an A and K on the flop.

If you do hit trips on the river just dont let them draw out if OESD come or FD's, bet them agressively.

Alternatively if a pretty unscary flop comes like rainbow AK9 just bet out on them and hope to get called if you're in EP, if you're near CO its a toss between smooth calling and raising. Definitely check raise/re-raise the turn and the river if it isnt too scary, dependant on position.