I read quite a lot on several Total War forums about how much people hate faction reappearances. Some people feel that once a faction is destroyed it should stay that way and never come back, while others feel that they're okay but only as long as they don't appear in their territories. But faction reemergencies should never occur in your own empire because it's pretty easy to ensure that your loyalty is at least 120% and therefore clamping down on any possible rebellion (using spies, garrisons, buildings etc, to increase loyalty.)
I personally love factions coming back because it reinvigorates the proceedings and you can also use them to your advantage, for example you can use them as a buffer between yourself and an enemy (it also helps, though not always possible, to ally yourself as soon as you can with the re-emerging faction.) It's great seeing a faction suddenly reappear and then having it attacked by one of your enemies. This is why I never use the tactic of keeping a faction down to one province where it can do no harm and, ultimately, it cannot re-emerge Factions popping back from the dead can make the game more challenging and gives any factions currently in play something else to worry about.
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