I feel the same way as you about this theme song, so let's say I am a little biased because I just love the song, anyway... I really like the theme. The song it's pretty much done, the only thing I can say it's kind of missing it's a little of choir, at 2:46 when the great fairy song started, I expected some choir there, maybe it's just me, but I think that would make it better.
Well if you want something special for the song you could add Twilight Zone's song at the beggining of the song, you know... the music that plays when you face a normal enemy on hyrule field (about 7 seconds of it then start the song as it is). Just giving ideas though.
Keep up the good work!