You have committed a sin with your crystals...WAR!!!
Anyway, as you said, it does seem like your typical FF storyline (I'm surprise at how FF is still around, personally.) So I mean there isn't really much you can differ between. You have a few things in there that may be slightly interesting, but all in all nothing spectacular story-wise.
The thing about FF is that it has always relied on gameplay to be a good game, so that is where you're going to have to excel. In gameplay, things such as dungeon designs, unique systems, battle tactics, are all essential to bringing out the the essence of an FF game, and more importantly making it work a go.
The screenshots, from the few there are, look rather nice. I have to say that's one of the better FF title screens I've seen. You're mapping looks pretty solid, so you have my interest. I like to play the fangames to look for th effort the author has put in, so surprise and impress me
EDIT:
Eat your heart out Twilight/Michael.