More officer (auto-assign I think) weirdness: I recently made a geo-survey team, headed by Dante Lightford. I think auto-assign took him off the team and assigned him to a missile complex, while leaving the other members of the team alone. I'm not 100% sure, but I think I pushed the auto-assign button during the "commander killed" episode described above - this seems to have moved Dante off the team (which he had been on for only 4 months). The other possibility is that I assigned him to the missile complex by hand by mistake, but I'm pretty sure I didn't.
Another note - the reason that I'm not sure is that, when I push the auto-assign button on the commanders (F4), it looks like the "command assignment" events aren't being generated as they would during book-keeping phase auto-assignment.
John