Could be. I heard that the DVD's presentation of the film was going to be "unchanged" from the theatrical version, but you never know. I wouldn't be surprised if there was some minor tweaking, like what they did with AOTC (minus of course the insertion of a couple lines of dialouge.. I mean like Jango's sparking backpack).
I'm pretty sure the floaters had the blue "force field" glows, but yeah, that'd be something to check.
In the shot with Anakin recieving the mask it almost looks like he still has eyebrows if you're not focusing on it, but I paused and looked closely and they're definately gone (at least in the DVD version) plus the makeup didn't show his eyebrows (I haven't seen the part you're referring to).
Maybe so...
Personally I think removing Shaw's eyebrows makes him look even more "humpty dumpty"ish (and in the Lowry Digital restoration his face is drained of all color so he's literally gray... though he still had a little touch of pinkness to his face before IIRC, which matched the back of his head being fleshy in ESB). It also serves to make the bald cap Shaw is wearing that much more obvious.