<p>I was in a similar situation last year. I was ranked 8/400ish, behind kids who clearly unfairly "gamed" the system to get ahead. I talked with my guidance counselor about this, and she sent in a letter along with the School Report to all of the schools I applied to stating that it should have been much higher (1-2ish). I think it really helped in some of the schools I applied to, because no matter how much colleges talk about how they look at the overall package, a low rank with an otherwise solid package certainly raises some eyebrows. </p>
<p>I think the letter you sent in was fine - it WOULD have been bad had you sent it in yourself without GC/Principal input, since that would have looked like whining. But the fact that they supported you shows both honesty and maturity on the issue. </p>
<p>Lastly, try not to worry as I did last year. It turns out it was all for nothing since I was accepted to some of top (ivy) choices. Good luck!</p>