I must say, there is some major improvements made in here. And why wouldn't there be? It's a remake, where you can take what mistakes you made or things you didn't like in the old version and make them better, combined with all the knowledge and skills you have acquired since then (6 years in this case).
Backgrounds: Excellent (for YT's version obviously)
Voice Acting: Much better
Music: Great
Animation/Flash models: Much better
The extended script lets you ease into the character intros better. I can also see Link and Saria's running around as a training session a lot more now, so it was a good move to extend that scene especially. The motion blurred shots were a great touch too.
The only thing that actually bugs me is the inaccuracy between subtitles (which have a good OoT feel) and what the characters actually say. From what I can tell, voices are done absolutely last. I recommend saving the subtitles until after getting the voices, or at least update them.
Did I mention how much I like the menu screen? X3