I'm sorry, but it just wasn't that good
Much as I love Megaman Zero, and was glad to see that we have a Flash movie for it, finally, I have to say that your poor plot execution kills this movie. For one, it didn't make me believe like the characters were actually there...like in Ciel's room, she was a bit too quick to change her mind about Zero leaving. Also, I realize there isn't much variety in Zero's attacks, but if he lost his saber, how could he use it in the desert? Just a thought.
One more thing...using proper punctuation, grammar, and spelling is a helpful thing.
You are an excellent animator, though, and you have good taste in what music to use where. Your plot and execution of said plot needs a little work, though.
I hope this review helps.