It's a shame that the 1997 SE materials actually had to be cut into the original negative. I guess the good thing is that eventually when they have to do a new scan of the negative, it won't contain the '04 and '11 changes... Also, the colors won't be messed up.
It's just as bad that they also did it to Apocalypse Now because the new scenes, on the whole are rubbish, and ruin the film's pacing. At least they reconstructed the theatrical cut for the Blu-Ray...