That's the safe option, the one that everybody'd do. That aside, what about the people who only care about their own hide, or have been brainwashed to the point of thinking their own family impure vermin?
I had an idea like this one we're doing now, once. Just so you know, nobody joined, but I did manage to think of something.
See what if the mutants all had a poison constantly in them, that only required a catalyst to activate? We're giving people super powers here, so I think we can afford to push things a little. Then, when the rebelling person has been killed, their dead body is displayed somewhere everyone can see. A crudely-made plaque could hang around their neck, stating their name, and what their crime was. And it wouldn't be just death - oh no. The look of sheer agony etched on the corpses' faces that froze on them when the person died could show the rest of the facility "You will die VERY painfully if you do not adhere."