| Club: | San Jose Clash |
| Season: | 1999 |
| Stadium: | Spartan Stadium |
| League: | Major League Soccer |
| League Result: | Division: 5th Overall: 7th |
| Chrtitle: | Owner |
| Chairman: | Kraft Sports Group |
| Mgrtitle: | Coach |
| Manager: | Brian Quinn |
| League Topscorer: | Ronald Cerritos (15) |
| Cup1: | MLS Cup |
| Cup1 Result: | Did not qualify |
| Cup2: | U.S. Open Cup |
| Cup2 Result: | Did not qualify |
| Cup3: | California Clásico |
| Cup3 Result: | 2nd |
| American: | true |
| Prevseason: | 1998 |
| Nextseason: | 2000 |
The 1999 San Jose Clash season was the fourth season of the team's existence. The San Jose Clash were purchased and owned by the Kraft Group Sports on November 18, 1999. San Jose revamped their roster for the 1999 season adding an influx of youth utilizing the draft with Jamie Clark, Jimmy Conrad, Scott Bower, Caleb Porter, Maxi Viera, Carlos Farias and Anthony Farace. They also picked up Joe Cannon, Leighton O'Brien, Adam Frye and Joey Martinez. The team set an MLS best in shootouts with 11 wins in 1999.
See also: 1999 Major League Soccer season.