I'm actually starting to think Talos may agree with the Stormcloaks, in that the Empire is old and needs to be replaced. Here's my reasoning. Right before you go fight Dagoth Ur at Red Mountain in Morrowind, you can talk to an old Imperial soldier, Wulf, in Ghostgate, who you later find out to be an aspect of Talos. He tells you that he(i.e. the Empire) is old and worn out and mentions that maybe it's time for some new people and ideas to take his place. I dunno, just my 2 cents.