I'm a 14 year old and will be a freshmen in High School next year. I am smart, 4.0 GPA and take advanced classes. I have always been good at math and sciece and love aviation. I also almost have my eagle scout.

The problem is, I'm in pretty good physical shape, but have never been that good at sports. Also, I have pretty bad eyesight, way worse than the requirements and would have to get PRK or something similar.

Is there any chance of me getting a pilot slot through the USAFA? Thanks in advance. 

Yes, quite a few USAFA cadets get PRK.  DO NOT get it privately, as that woud DQ you.

Keep up your grades, make eagle, stay fit, join a sport, and take leadership positions in activities you like.  That will set you up to very competitive for admissions into USAFA or AFROTC.