I actually have this in a number of games, though it does seem pretty random which ones. Sometimes a beautiful-looking game will be stutter free, other times a pretty old and basic-looking game will stutter like that dude from Police Academy. What I'm referring to is this almost heartbeat-like judder that goes on regardless of the framerate of the game. The fps readout could be saying 60+fps and still, every second or so, jolt... jolt... jolt.
It's really annoying, it's worse than simply having a bad framerate because it's so unpredictable. It's not just "kind of choppy", it's like someone's randomly pausing and unpausing a DVD. It doesn't matter how low or high the settings are (nor in other games). I actually have the exact processor named in the recommended and the exact amount of RAM also, plus my graphics card is the one mentioned. I know "recommended" doesn't mean "fucking amazing, 4000 frames per second", but this is a joke. It's like I'm trying to play it on a Dell PC from 2001.
Edit: And yes, I have checked background processes and all that by-the-number troubleshooting stuff. I've read a lot about this problem with FarCry 3, a game I got it horribly with, and none of the usual solutions helped me. As the nun from Jay and SIlent Bob Strike Back once said, "Help me Giant Bomb, you're my only hope".