This conflict is just like Skyrim. (And to a further extent, the American Civil War) Both sides have a fair reason to go to war, and each side think they're right.
First first side, Xexorian's side, is just like the imperials. The imperials fight for their empire, and they want to keep it together. They think that the other side's leader is a traitorous scum that leads his army under lies. That's basically true, right?
The second side, Canterlot, is just like the Stormcloaks. The leader of one hold (or in this case town) has branched off from the empire after insulting (killing for Ulfric) the other side's leader(s). Several other holds (or towns) join him. The reasons for the leader may be corrupt, but the citizens think they are fighting for a just cause.
Now before you say, "That's completely false, you're wrong!" Think about it. I'm right, or you haven't played Skyrim (Which I highly recommend, Skyrim is amazing.) Now, what is the point of me saying this?
No matter what, both sides are going to be hurt. If Xexorian's side wins, then Canterlot is crushed, new leaders are established, and EtEKen is killed (or well, leaves the server). If Canterlot wins, then they secede from them and a strong feud is made. (Not like skyrim there, though) Each side is going to have friends who become enemies, just because of some petty political problems. People who want to stay neutral, like me, are going to be forced onto a side that they don't want to be on. Unfortunately, most people on Herocraft are hungry for blood and are very PvP orientated. This war will happen, but I urge you to try your hardest to make it less bad.
Please note that I rambled and didn't explain this that well. I'm trying to be unbiased here.
tl;dr This war is like skyrim. Also people are going to get hurt, a lot.