The 2016 NCAA Men's Water Polo Championship was the 48th annual NCAA Men's Water Polo Championship to determine the national champion of NCAA men's collegiate water polo.

The five conferences receiving automatic qualification were: the Collegiate Water Polo Association (CWPA), Mountain Pacific Sports Federation (MPSF), Northeast Water Polo Conference (NWPC), Southern California Intercollegiate Athletic Conference (SCIAC) and the Western Water Polo Association (WWPA).

California defeated USC 11–8 to win the national title in double overtime.

Under the new format, seven teams are invited to contest this single-elimination tournament.

The championship was held December 3 and 4, hosted by California.