The 1999–2000 Jackson State Tigers basketball team represented Jackson State University in the 1999–2000 NCAA Division I men's basketball season.

The Tigers, led by 11th-year head coach Andy Stoglin, played their home games at the Williams Assembly Center in Jackson, Mississippi as members of the Southwestern Athletic Conference.

After finishing the conference regular season tied for fourth in the standings, Jackson State won the SWAC tournament to receive an automatic bid to the NCAA tournament.

16 seed in the West region, the Tigers were beaten by No.

1 seed Arizona in the opening round.