I think this is why I've been having trouble with Schlock Mercenary lately. When it's the mercenaries themselves, or assorted cohorts, it's all good - we know they're basic flawed
Only right now it's not the mercenaries, it's Petey. Petey taking over the entire fleetmind. Yeah, I wonder who's going to win? If Petey wasn't about to win, it's not like the mercs can do much, we're just all doomed. So Petey wins. So where's the stress and uncertainty? Of course he's going to win, it's Petey!
'Course, now it's over. It's possible Petey's gone berserk and is going to try to destroy our galaxy at some point, but at least that'll provide some conflict.