The next release of the SE needs a Final Cut treatment anyway. There are still some unfixed effects errors in the '04 version like the transparency issues brought up in the People vs. GL thread. The most glaring effects error of all is the second time the Death Star II blows up a ship and all of the ships in the background roll with the camera.
Oh, and the deleted scenes are gonna be on the blu-ray no question. They were conspicuously absent on the '04 release and we now know that people at LFL are going through the material. So deleted scenes are a given. I still don't think that's gonna be enough for LFL to get the numbers they're looking for without throwing in a remastered OOT.