Murray was 10 of 17 from the field. Amadi Udenyi added nine points and five assists for Pepperdine (4-4), which won its first road game.
The Matadors' Landon Drew hit a 3-pointer and Warren made a layup to tie it at 32-all with 2:21 left in the first half. Udenyi scored four of the Waves' next eight points to build a 40-32 halftime lead.
Murray scored four points, sparking an 11-6 spurt to stretch the Waves' lead to 51-38 with 14:32 remaining. Both teams then went cold, with Pepperdine's A.J. John scoring a layup for the only points during a 5:24 span.