Bonner attended A.C. Jones High School where he earned a total of nine letters (four in football, four in track and one in basketball).
As a senior, he was named All-South Texas Quarterback and Offensive Player of the Year by the Victoria Advocate.
He was offered football scholarships at Georgia Tech, Houston and SMU but elected to play at TCU.
In 2005, Bonner led the team with four interceptions, two of which came in a win against Colorado State, which clinched the 2005 Mountain West Conference championship.
In 2007, Dave Campbell's Texas Football selected Bonner to their 2007 preseason all-Texas college team.