User blog comment:LoveWaffle/Ranking 2013's Superhero Movies/@comment-4651179-20140115001123

Well, technically Killian's wasn't motivated by getting his revenge on Tony. What many people mistake is that when Killian was left in the rooftop, he didn't gain a hatred for Tony, but he discovered the whole "anonymity is better" thing. When A.I.M. attacked Malibu's mansion, it was because Tony threatened "them" (as stated by Killian himself to Maya in the basement). So he was, indeed, more motivated in getting Stark stabilize the Extremis formula than getting revenge on him, because he didn't want to get revenge on him on the first place.

Then his other motivation was Pepper. Killian liked Pepper since college (as stated by her before meeting him), and wanted to make her perfect with Extremis. And his motivation to fight Tony in the final act was because he was trying to take Pepper away from him and then because he indirectly caused her apparent death.

Getting revenge on Tony wasn't part of his plan, and Tony's further meddling wasn't planned. So Killian caught Tony in Miami, and just decided to keep his plan going. And Extremis was indeed not A.I.M.'s only project, one of them was the rebranding of War Machine into Iron Patriot.

And the movie isn't actually as conclusive as it seems. It closes a door, but opens another one. Stark is now a different man, less paranoic and can return to his old habits instead of being locked inside his laboratory barely sleeping and getting obsessed over his suits. And the movie doesn't put an end to Iron Man, as Stark himself states he will always be Iron Man, it just closes a phase to being a new one.