The Toreros compete in NCAA Division I as a member of the West Coast Conference (WCC).

As of 2023, 24 USD alumni have played in Major League Baseball, most notably World Series champion Kris Bryant.

[2] The school, founded in the early 1950s, was then known as the San Diego College for Men, and its athletic programs were known as the Pioneers.

[3][4] Mike Morrow was the program's head coach for its first six seasons (1958–1963), and the team had an 82–64 record during his tenure.

The SCBA's counterpart, the Northern California Baseball Association (NCBA), also began play in the 1977 season.

[11][12] San Diego played six seasons in the SCBA, never finishing higher than fourth in the conference.

[5] The SCBA and NCBA stopped operating after the 1984 season, and the PCAC and WCAC returned to sponsoring separate baseball conferences.

Then-San Francisco head coach Rich Hill was hired to replace Cunningham.

[5] After winning the WCC Championship Series, the team received a berth in the 2007 NCAA Division I baseball tournament as the #8 National Seed.

[18][19][20] Brock Ungricht joined San Diego as a hitting coach and recruiting coordinator in 2019.

[5][23] Beginning in the 2013 season, the team will play at Fowler Park, built on the location of Cunningham Stadium, which was demolished in summer 2012.

The park is named for Ron and Alexis Fowler, who donated much of the stadium's $13 million construction cost.