I've read a little history on Stonewall Jackson, and I don't ever recall him being painted as either a racist or a biggot, but it's been a while.
People tend to forget that the Civil War, while rooted in the debate over slavery, was fought over many different issues. Mainly, the Southern states not wanting to be told what to do by the Northern states. Just because a man fought for the South, doesn't make him a racist.