I'm trying to go to school in the fall too, and I remember on the FAFSA website it said you can apply even after school has started. It's just the later you apply the less chance there is money there.
Also, one school I just got into because I was waitlisted, and the other won't tell me until May 1. So if there's no money available, that really isn't fair, and doesn't make sense for schools that notify later than others.
I would go to the FAFSA site, and to the financial aid site of the school(s) you applied to, for more info.
good luck!