The X-Men are limited? In what sense? Marvel's still publishing a metric f***-ton of X-Men comics, and they're part of the big event going on right now. Other franchises would kill to be that "limited."
The only reason the FF comic is getting outright canceled--if these rumors about Perlmutter's pettiness being the prime mover behind it are even true--is because they sell so terribly he can get away with it. The X-Men remain untouched because they're a huge part of Marvel's profits, and I'm pretty sure you'd have to have some kind of brain damage to write off all that revenue in favor of a petty grudge. At the end of the day, whatever other drama is going on, it still always comes down to sales.