Stokes then played three years of college soccer at the University of North Carolina at Chapel Hill from 2000 to 2002.

As a sophomore, Stokes was named Defensive MVP of the College Cup as he helped UNC to a national championship.

Although Stokes' athleticism was clear, he did not receive the opportunity to play in regular season action during his rookie year.

[1] After Ray Hudson was released, many expected Stokes to play a larger role in Peter Nowak's team.

After recovering from this, he had another setback after he suffered a harsh tackle resulting in cartilage damage in his left ankle.