Badges don't really do anything in the game. As said, why nerf what is simply a self-accomplishment? You can play by your own rules for them. That is a good thing.
After a very small amount of time, all challenges and even AAo* challenges will be unlocked. If you *really* want all the badges, by all means grab them however you want to. Nerf them? I'm not sure that you can. They don't effect anything, they're just a different sort of challenge. It's actually one of the beautiful things in DoomRL. You can play it, you can win it, but there's an entire sub-section of wins available to you. It's not pokemon. You don't have to "catch 'em all" to have fun in the game, or even be an accomplished player.