| Group A | 18/09/2008 | Marathón | - | Cruz Azul | 2:0 | ||||
| Group A | 25/09/2008 | Marathón | - | D.C. United | 2:0 | ||||
| Group A | 01/10/2008 | Deportivo Saprissa | - | Marathón | 2:1 | ||||
| Group A | 08/10/2008 | Cruz Azul | - | Marathón | 1:1 | ||||
| Group A | 30/10/2008 | D.C. United | - | Marathón | 2:4 |  |
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| Group A | 06/11/2008 | Marathón | - | Deportivo Saprissa | 2:0 | |
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| Quarter-finals | 27/02/2009 | Puerto Rico Islanders | - | Marathón | 2:1 | ||||
| Quarter-finals | 05/03/2009 | Marathón | - | Puerto Rico Islanders | 0:1 |
Honduras