sunday256 said:

Well, I heard back from my contact that worked at Lowry Digital. Unfortunately, I wasn't able to get any information about the coloring changes because there was none to give since he didn't start there until after SW was completed. Plus he mentioned NDAs.

I was just reading articles about Lowry's work and here's what Jim Ward, Vice President of Marketing and Distribution for Lucasfilm and Executive Producer of the collection said:

"We’d done a lot of work on the films prior to going to John [Lawry], re-mastering them in high-def, down-converting them into standard def, and re-color timing them. We actually took a cleaning pass through Industrial Light and Magic, as well, but then ultimately took them down to John to make them pristine."

-Apple Canada

So it sounds like ILM digitized the film, down-converted it, color-timed it, tried to clean it, and then sent the remains to Lowry to be cleaned up. Does that mean ILM add the new 2004 changes to the damaged print? It does seem like ILM is responsible for the bad colors though.