In 1989, Jones took his first coaching job as an assistant coach on the Briarwood Christian School staff in Birmingham, Alabama.
Jones was a successful high school football head coach at both Dora and Mountain Brook. He took over at Dora in 1991 for three seasons before moving over to Mountain Brook for ten years in 1996.
During his 13 season coaching career all but his first team qualified for the state playoffs. His teams also won five region championships. His playoff record stands at 22-12.
Coach Jones accepted the head coaching job at Birmingham-Southern in 2006. He was Birmingham-Southerns coach for their 2007 season, the first for the Division III school since 1939. He led the Panthers to a 1-7 inaugural season in the SCAC with primarily freshman and sophomore players.
On February 15, 2008, Jones was announced as South Alabamas first head football coach. Coach Jones first football team at South Alabama competed during the 2009 season. He remains with the program entering the 2013 season. The Jaguars now compete in the Sun Belt Conference.