The Imperials want Skyrim to remain part of the Empire. However, they made
a treaty with the High Elves that bans the worship of Talos, a god important to Nord culture.
The Stormcloaks are a rebellion that wants to free Skyrim so they can worship how they
see fit. They also have other issues with Imperials imposing on traditional Nordic culture.
Thats the jist of it, but there are other things you might want to consider. Some feel that
Ulfric Stormcloak is power hungry, and the rebellion is just a way for him to become
High King. Although many Imperials are sometimes arrogant in the game, Bethesda never really
shows you them treating the Nords badly at all. If you're looking for the side that's right, there
isn't one. Bethesda wanted the contreversy, but didn't put alot of effort into illustrating either/both
sides of the conflict. Unfortunatly, it makes the war sort of shallow and unrealistic.