| 2. Round | 22/04/2013 | San Jose Earthquakes | - | Portland Timbers | 1:1 | ||||
| 2. Round | 28/04/2013 | CD Chivas | - | San Jose Earthquakes | 2:2 |  |
|||
| 3. Round | 04/05/2013 | San Jose Earthquakes | - | Impact de Montréal | 2:2 | ||||
| 3. Round | 09/05/2013 | San Jose Earthquakes | - | Toronto FC | 2:1 | ||||
| 3. Round | 19/05/2013 | San Jose Earthquakes | - | Colorado Rapids | 1:1 |  |
|||
| 3. Round | 26/05/2013 | FC Dallas | - | San Jose Earthquakes | 1:0 | ||||
| 4. Round | 02/06/2013 | Real Salt Lake | - | San Jose Earthquakes | 3:0 | ||||
| 4. Round | 23/06/2013 | D.C. United | - | San Jose Earthquakes | 1:0 | ||||
| 4. Round | 30/06/2013 | San Jose Earthquakes | - | Los Angeles Galaxy | 3:2 | ||||
| 5. Round | 28/07/2013 | San Jose Earthquakes | - | Portland Timbers | 2:1 |  |
|||
| 6. Round | 19/08/2013 | San Jose Earthquakes | - | Sporting Kansas City | 1:0 | ||||
| 6. Round | 25/08/2013 | FC Dallas | - | San Jose Earthquakes | 2:2 | ||||
| 7. Round | 01/09/2013 | Los Angeles Galaxy | - | San Jose Earthquakes | 3:0 | ||||
| 7. Round | 15/09/2013 | San Jose Earthquakes | - | Vancouver Whitecaps | 0:0 | ||||
| 7. Round | 30/09/2013 | CD Chivas | - | San Jose Earthquakes | 0:1 |
Honduras