I don't remember mission names, but I've got a couple favorites. The nightclub and the raptor news tower are definitely up there, but hands down my favorite is storming the tower while kat relays the plan to you. Their graphics programmers really went all out, and that chalk "game plan" overlay that shows up was a really ****ing clever use of an edge detection shader, so massive props.
Least favorite: the trade. Ugh. I hate the grapple swinging more than anything else, and that level is an entire level of just that. No thank you