Harmy said:

Well, over-all, I'd say it's good news, because the existing 2004 master was horrible, so even if it was the altered version, which we've now confirmed it almost certainly is, it's still good that there is a new better master. On the other hand, the fact, that they seem to have decided to restore/remaster the altered version doesn't exactly bode well for an official OOT restoration.

I think it does seem pretty likely, that this "restoration" was done in 2012 for the planned 3D release, for which the 2004 1080p master didn't cut it any more, so they hired these guys to do the 2004/2011 version over from new 4K scans.

Well, I guess it's time for me to go back and lurk in that old abandoned ghost town called "Star Wars Preservation and other Fan Projects." I can't think of a better expert than Harmy when it comes to what version is which.