Spoonhour started his coaching career as a graduate assistant at Central Missouri State. This was followed by assistant coaching jobs at Saint Louis and Valparaiso before getting his first head coaching job at Wabash Valley College. In his one and only season at Wabash, he led the team to a 36-1 overall record and won the 2001 NJCAA Men's Division I Basketball Championship. He was named the National Junior CollegeCoach of the Year by both the NABC and NJCAA. Following the national title season, Spoonhour joined his father's staff at UNLV as an assistant. He spent three seasons in Las Vegas and in 2004, he took over as the interim head coach after his father resigned midseason. In the 10 games that the younger Spoonhour coached, the Runnin' Rebels went 6–4, including an appearance in the Mountain West Conference title game and an opening round loss in the 2004 NIT. He then went on to spend two seasons as an assistant at Missouri and three as an assistant at Texas-San Antonio before being hired as the head coach of Moberly Area Community College in Moberly, Missouri. In his three years there, Spoonhour had a record of 63–27. On April 6, 2012, Spoonhour was hired as the next head men's basketball coach at Eastern Illinois University of the Ohio Valley Conference. Spoonhour was chosen over a list of final candidates that also included Vanderbilt assistant David Cason, Oregon assistant Brian Fish, Nevada assistant Doug Novsek and Xavier assistant Kareem Richardson. In his first season as head coach, the Panthers finished 11–21 overall, but managed to make the conference tournament for the first time since the 2009–10 season. The Panthers were eliminated in the first round of the Ohio Valley Conference tournament by Southeast Missouri State.
Personal life
Jay is the son of former Missouri State, Saint Louis and UNLV head coach Charlie Spoonhour. He graduated from Glendale High School in 1989 and went on to earn a bachelor's degree in physical education from Pittsburg State University. He was a four-year letter winner in basketball at Pittsburg State, earning honorable mention all-conference honors as a senior. He is married to Nicole and has three children, Gracie, Charlie and Sam.