|1982–1984||San Diego State|
|Coaching career (HC unless noted)|
|1988||San Diego State (JV HC)|
|1989||Cal State Fullerton (Asst.)|
|1990||Riverside CC (Asst.)|
|1999–2002||Oregon State (Asst.)|
|2017-||Mississippi State (Asst.)|
|Head coaching record|
|Accomplishments and honors|
|Collegiate Baseball National Assistant Coach of the Year: 1996
SEC Coach of the Year 
Henderson started coaching at his alma mater, San Diego State, as the junior varsity head coach. He had assistant coaching stints at Cal State Fullerton, Riverside Community College, Chapman College (served as head coach for 1 season), and Pepperdine.
Henderson became an assistant at Florida in 1995. Following a trip to the 1996 College World Series, he was named the National Assistant Coach of the Year by Collegiate Baseball newspaper. With Henderson's assistance, Florida returned to the 1998 College World Series. After a successful stay at Florida, he moved back to the west coast as an assistant coach at Oregon State.
In 2003, he joined John Cohen's staff at Kentucky as the associate head coach. Following the 2008 season, Cohen accepted the head coaching position at his alma mater, Mississippi State, resulting in Henderson's promotion to head coach.
In 2012, Henderson was named Southeastern Conference Coach of the Year.
On June 1, 2016, Henderson resigned as Kentucky Baseball Coach. 
In June 2016, Henderson was named pitching coach at Mississippi State, re-joining John Cohen.
Head coaching record
|Kentucky Wildcats (Southeastern Conference) (2009–2016)|
|2012||Kentucky||45–18||18–12||T–2nd (East)||NCAA Regional|
|2014||Kentucky||37–25||14–16||4th (East)||NCAA Regional|
National champion Postseason invitational champion
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