Posting this one cause I hate these spots and not sure how to balance/adjust properly.

I was in CO with $700+, vill was BB w/ $350ish.

Table was mostly passive, but Villian had 3bet me 3-4 times in the last hour (no one else at table 3bet in the same timeframe), so I thought he may raise light, or play on the aggressive side. And he seemed to be in a fair share of pots, def not a nit.

My Cards: AcKc
Pre - folded to me in CO, I raised to $6, he called, rest folded

FLOP: As 9c 3h
he checks, I bet $10, he c/r to $45, I call (?)
TURN: Ad
he leads for $90, I call (?)
RIVER: 4h
he shoves for remaining $210 or so, I call (?)

He showed 99.

Sometimes I check the flop, sometimes bet. The flop c/r had warning bells going off, but thought AK is too strong to just fold on Axx to a c/r. Trying not to be results oriented. What are your thoughts on each street?