The only SE change I can actually say I prefer over the original was the ROTJ ending. I really don't like Ewoks too much, and them singing Yub Nub and celebrate the love is not something I have ever felt was the greatest ending to the trilogy. The yub nub bit worked well enough, but I kind of prefer the musical bit from the new one. I even kind of liked the idea of seeing other planet celebrating (until Jar Jar was added anyway), though, it is a bit silly considering the Emporer's body hasn't even gone cold yet, so to speak (yeah, I know, he got blown up), and they are already tearing down his statue. Seems for such a figure to be so powerful he would need a lot of loyalties, loyalties who wouldn't just give up the second he is dead.
As for the Hayden ghost, not only is it annoying that they removed Shaw and dismantled a moment in the film that was absolutely perfect the way it was, this change makes no sense at all! Obi-wan is an old man, and Anakin is still in his twenties. Someone didn't think that one through very well... If they had gone ahead and put Ewan's Obi-Wan there and maybe even the CG Yoda as well, then it would have made a little more since. Hell, just to make it even more weird and nonsensical, I think they just should have pasted the entire PT cast in there, kind of like at the end of a play when all the actors come out to take a bow. They could have had Padme, and Mace Windu, Shmi, Qui-gon, and just for kicks, Jake Loyd's Anakin could have been there too also, and let's not leave out Jar Jar, and Watto.
The only Anakin Luke ever met was the Sebastian Shaw Anakin, how would Luke even recongnize Hayden as his father's ghost? It just doesn't make any sense to make this change. It is just a lousy attempt to tie the two trilogies together, and to make it stand that the series is really the Tradgedy of Anakin Skywalker.