It might be the case that there is some outcome of the Civil War that involves a non-violent resolution to the conflict. I'm not sure what that would entail - splitting Skyrim up into Rebel controlled areas and Empire controlled areas? What are your thoughts?
It is a "war," however, so we might also see the only outcomes being limited to Rebels win freedom and independence for the province or Empire crushes the Rebels into submission and maintains stability and control over the province.
Well, it could be that the civil war was ultimately engineered by the covert efforts of a villainous third faction who's been acting to instigate and stoke the conflict, and that a peaceful resolution and reunification would involve exposing and dealing with them. No idea. I'm not exactly a lore wonk, particularly when it comes to anything that supposedly transpired after Oblivion. For example, earlier in the thread a 'Mede Empire' was mentioned, apparently from some novels based on the TES universe. I don't know anything about those novels, including whether they are considered canon, and how that empire differs from the largely benevolent Septim Empire of Oblivion.
The only thing I know is that as a player, I like playing good guys who fight bad guys as opposed to fighting other good guys who's differences are only political.