After his playing days were over, Kingston was hired as an assistant coach at Purdue. He was promoted to the top assistant position after two seasons, and then served one year at Illinois State. He then served two seasons at Miami (FL), where he helped guide the team to the 2001 College World Series title, produced two All-Americans, and saw 18 players sign professional contracts. He then moved to Tulane as recruiting coordinator, where six of his seven classes were ranked in the Top 25 nationally by Collegiate Baseball. The Green Wave reached the 2005 College World Series as the top seed, and earned academic honors in Omaha. In 2009, Kingston served as associate head coach at Illinois State before being elevated to the top job the following season.
Kingston was named the head coach at South Florida ahead of the 2015 season. Kingston coached at USF from 2015 to 2017 and led the Bulls to a pair of NCAA Regional appearances.
On June 30, 2017, Kingston was named the head baseball coach at South Carolina, becoming the 30th head coach in program history. Despite inheriting a team that failed to reach the postseason the year before, Kingston led the Gamecocks to an NCAA Regional crown and an NCAA Super Regional appearance in his first year at the helm. Kingston was relieved of his head coaching position on June 3rd, 2024.
On June 17, 2024, Kingston was named the associate head coach/head coach in waiting for Creighton. He will serve under Ed Servais, who will be going into his 22nd and final season as head coach of the Bluejays in 2025.[6]
National champion
Postseason invitational champion
Conference regular season champion
Conference regular season and conference tournament champion
Division regular season champion
Division regular season and conference tournament champion
Conference tournament champion