Well, the good thing is, it's mostly the "random movement" bots that cause this simply because they can stick around the longest due to a lack of aggression. Fights with other bots usually dont take that many turns one way or another, so it's not really as noticable with them, because you're focused on defeating them. I dunno that it needs any special options implemented to deal with it, mostly I just thought I'd bring it up, as it's bound to annoy at least some players.
EDIT: Ok, no, there IS one more thing that's worse than the random movement bots: Skybots. If one of them is allowed to generate alot of dumbots.... often by something happening out of sensor range (and they keep activating like that, and I cant figure out WHY).... it can cause the worst slowdown of all once a bunch of them are moving at once. It's bad enough that usually my solution is to reload the save and restart the mission until it stops giving me Skybots. It wasnt a problem before, not as much anyway, when these guys werent activating well out of sensor range. As it is, in my last attempt at a mission, I had 2 of the things fire up at once, both where I couldnt see them, and there were ALOT of things roaming around in sensor range shortly afterwards. Each turn takes absurdly long in this case.
Oh, and one other thing I'd wanted to mention: The missions that give computer parts, these seem to give hardly any loot whatsoever. No chests to go after, which I assume is because of the way that type of area generates. They end up being the worst of the "specific loot" missions, and could possibly use a change. I generally end up ignoring them and just getting computer items from the store instead (provided it generates them, which so far it hasnt; I've seen only one hacking item all game). Kept meaning to mention this, kept forgetting.... EDIT: Hm, these also seem to take REALLY long. Too many things moving at once again, due to the level layout.
That keybind thing might be a good idea after all. Since I hadnt really been doing that specific mission type much, hadnt quite realized it was that bad about the slowdown thing.
YET ANOTHER EDIT: Of COURSE after I mentioned not finding hacker parts, the next mission I did, which wasnt a "specific loot type" one, immediately spat like 4 of them at me. This game, it can be very devious sometimes.