Actually I'm betting they won't be common for the player unless they are deliberately trying to start one.
If Empire is anything like Rome and Medieval 2 then I won't be letting the happiness in my home province drop anywhere near low enough to trigger a civil war. My home provinces are always at 100% or higher, and I think most players are probably similar.
We might see the A.I constantly at war with itself however, since the A.I has never been great at managing anything much, and province loyalty is no exception.
@ Ishmael
If you really hate the idea of re-emerging factions then you can probably mod it out of the game. I hope the vanilla game has it however, because it is easier to mod it out than in.
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