The 1978–79 Pepperdine Waves men's basketball team represented Pepperdine University in the 1978–79 NCAA Division I men's basketball season.

The team was led by head coach Gary Colson.

The Waves played their home games at the Firestone Fieldhouse and were members of the West Coast Athletic Conference.

Pepperdine received a bid to the NCAA tournament.

In the opening round, the Waves beat No.