Another thing worth noting (not sure if it was mentioned in the first thread) is that upon completion of the Stormclock campaign, the Thalmor and Imperials are removed from Skyrim, and Ulfric talks of rebuilding and strengthening Skyrim, for either defense of their homeland from their enemies (Thalmor) or to take the fight to those that would oppress others (hinting at willingness to aid the Empire drive back the Thalmor when Skyrim has had a chance to regroup).
While it is true there is some racism from SOME Stormcloak supporters, I have seen some equally distasteful (sometimes more so) behaviour from the Imperials, including one act we all get to see early on. ("Screw the list!")
I was having trouble deciding between the two sides, but I think I can say I would support the Stormcloaks. They have had their religion banned, they are being persecuted by a foreign race who views them as inferior, they have no say in their governing or problems, and the Empire offers at best a "Maybe Later" attitude towards the Thalmor. I would be rightfully angry as well. When you ask your government (whether monarchy or democracy or dictatorship) for help, or for freedom and rights that have been taken away, and they deny you, they are no longer your government. (Don't get me wrong, I'm not saying just because a government does something you disagree with, you should rise up, but if they take away your freedom, religion, or culture from you, there is a serious problem)
Additionally, I saw someone post a quote from Benjamin Franklin: (not an American myself, but I couldn't agree with it more)
They who can give up essential liberty to obtain a little temporary safety deserve neither liberty nor safety.
This is what the Empire has done. They have sold out their people, instead of fighting to their last breath to protect them. The Redguards/Hammerfell did this, and Skyrim (Ulfric and his Stormcloaks) is/are trying to do this.