Hoke left his assistant coaching position at Michigan in December 2002 to become the head football coach at his alma mater, Ball State. In six years at Ball State, Hoke was credited with turning around the football program. In 2008, he led the Ball State football team to a 12–1 record and the first appearance in the Associated Press Top 25 (peaking at No. 12) in school history. In December 2008, Hoke was hired as the head football coach at San Diego State University. He led the 2010 San Diego State Aztecs football team to the school's first nine-win season since 1971 and a victory over Navy in the 2010 Poinsettia Bowl.