RaW's "AI changes" can interfere with any other mod, not just TR; however, sometimes it'll just have no effect at all. If you don't experience any problems from it, then don't worry about it. That information is just there for the people who do end up getting problems from it, since I was tired of having to do tech support for RaW's issues.
It's very easy to just disable those two folder when not playing RaW, though. Just go into Forces of Corruption\Data and rename Scripts to ScriptRaW, and into Forces of Corruption\Data\XML and rename the AI folder in there to AIRaW. Then when you wan to play RaW again, rename them back.