| 1. Round | 18/01/2004 | Atlas Guadalajara | - | Puebla FC | 1:1 |  |
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| 2. Round | 25/01/2004 | Pumas UNAM | - | Atlas Guadalajara | 3:0 | ||||
| 3. Round | 01/02/2004 | Atlas Guadalajara | - | Cruz Azul | 0:2 | |
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| 9. Round | 07/03/2004 | Real San Luis | - | Atlas Guadalajara | 1:4 | |
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| 10. Round | 14/03/2004 | Atlas Guadalajara | - | Santos Laguna | 2:0 | ||||
| 11. Round | 21/03/2004 | Atlante | - | Atlas Guadalajara | 3:4 | ||||
| 12. Round | 28/03/2004 | Atlas Guadalajara | - | Jaguares Chiapas | 0:0 | ||||
| 13. Round | 04/04/2004 | CF Pachuca | - | Atlas Guadalajara | 1:1 | |
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| 16. Round | 25/04/2004 | Atlas Guadalajara | - | UANL Tigres | 2:2 |
Mexico