When Mission: Impossible 2 came in 2000, Eugene Kittridge was nowhere to be seen, with Anthony Hopkins’ Swanbeck instead assigning Ethan Hunt his mission.
Kittridge also has a higher opinion of Ethan Hunt compared to in Mission: Impossible, although that doesn’t mean he’s fully in the IMF agent’s camp.
Six years later, Laurence Fishburne’s Theodore Brassel served as the IMF director in Mission: Impossible III, and there was no mention of Kittridge’s whereabouts.
As Henry Czerny sees it, his character had made his way through various intelligence agencies and picked up more skills and knowledge, as one should always strive to do.