| | | |
| February 23, 2025 | W | San Diego FC 2 at LA Galaxy 0 | Final |
| March 1, 2025 | T | St. Louis City SC 0 at San Diego FC 0 | Final |
| March 8, 2025 | W | San Diego FC 3 at Real Salt Lake 1 | Final |
| March 15, 2025 | T | Columbus Crew SC 1 at San Diego FC 1 | Final |
| March 23, 2025 | L | San Diego FC 1 at Austin FC 2 | Final |
| March 29, 2025 | W | Los Angeles FC 2 at San Diego FC 3 | Final |
| April 5, 2025 | W | Seattle Sounders FC 0 at San Diego FC 3 | Final |
| April 12, 2025 | L | San Diego FC 2 at Colorado Rapids 3 | Final |
| April 19, 2025 | L | San Diego FC 0 at Charlotte FC 3 | Final |
| April 26, 2025 | L | Real Salt Lake 3 at San Diego FC 1 | Final |
| May 3, 2025 | W | FC Dallas 0 at San Diego FC 5 | Final |
| May 10, 2025 | W | San Diego FC 2 at St. Louis City SC 1 | Final |
| May 14, 2025 | W | Colorado Rapids 0 at San Diego FC 2 | Final |
| May 17, 2025 | T | Sporting Kansas City 0 at San Diego FC 0 | Final |
| May 24, 2025 | W | LA Galaxy 1 at San Diego FC 2 | Final |
| May 28, 2025 | L | San Diego FC 0 at Seattle Sounders FC 1 | Final |
| May 31, 2025 | W | Austin FC 0 at San Diego FC 2 | Final |
| June 14, 2025 | W | San Diego FC 4 at Minnesota United FC 2 | Final |
| June 25, 2025 | W | San Diego FC 5 at Vancouver Whitecaps FC 3 | Final |
| June 28, 2025 | W | San Diego FC 3 at FC Dallas 2 | Final |
| July 5, 2025 | L | Houston Dynamo FC 4 at San Diego FC 3 | Final |
| July 12, 2025 | W | San Diego FC 2 at Chicago Fire FC 1 | Final |
| July 16, 2025 | L | Toronto FC 1 at San Diego FC 0 | Final |
| July 19, 2025 | T | Vancouver Whitecaps FC 1 at San Diego FC 1 | Final |
| July 25, 2025 | W | Nashville SC 0 at San Diego FC 1 | Final |
| August 9, 2025 | W | San Diego FC 2 at Sporting Kansas City 0 | Final |
| August 17, 2025 | W | San Diego FC 2 at San Jose Earthquakes 1 | Final |
| August 23, 2025 | T | Portland Timbers 0 at San Diego FC 0 | Final |
| August 31, 2025 | W | San Diego FC 2 at Los Angeles FC 1 | Final |
| September 13, 2025 | L | Minnesota United FC 3 at San Diego FC 1 | Final |
| September 20, 2025 | T | San Diego FC 1 at Atlanta United FC 1 | Final |
| September 27, 2025 | L | San Jose Earthquakes 1 at San Diego FC 0 | Final |
| October 4, 2025 | W | San Diego FC 4 at Houston Dynamo FC 2 | Final |
| October 18, 2025 | W | San Diego FC 4 at Portland Timbers 0 | Final |
| October 26, 2025 | W | Portland Timbers 1 at San Diego FC 2 (Playoff Gm. 1) | Final |
| November 1, 2025 | T | San Diego FC 2 at Portland Timbers 2 (Playoff Gm. 2) | Final (PK 2-3) |
| November 9, 2025 | W | Portland Timbers 0 at San Diego FC 4 (Playoff Gm. 3) | Final |
| November 24, 2025 | | Minnesota United FC at San Diego FC (Playoff) | 10:00 p.m. |
San Diego FC Schedule
