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| 1st(1st leg) | Kampala City Council FC | - | Al Merrikh SC | 0:1 | ||
| 2nd (2nd leg) | Al Merrikh SC | - | Kampala City Council FC | 1:1 | ||
| 1st(1st leg): 17/04/2009 14:00 | 2nd (2nd leg): 02/05/2009 18:00 | Winner: Al Merrikh SC | ||||
| 1st(1st leg) | Kano Pillars | - | Al Ahly SC | 1:1 | ||
| 2nd (2nd leg) | Al Ahly SC | - | Kano Pillars | 2:2 | ||
| 1st(1st leg): 18/04/2009 16:00 | 2nd (2nd leg): 02/05/2009 18:30 | Winner: Kano Pillars | ||||
| 1st(1st leg) | Djoliba AC | - | ZESCO United | 0:0 | ||
| 2nd (2nd leg) | ZESCO United | - | Djoliba AC | 2:1 | ||
| 1st(1st leg): 18/04/2009 16:00 | 2nd (2nd leg): 02/05/2009 14:00 | Winner: ZESCO United | ||||
| 1st(1st leg) | Al Ahly Tripolis | - | Étoile du Sahel | 0:0 | ||
| 2nd (2nd leg) | Étoile du Sahel | - | Al Ahly Tripolis | 2:0 | ||
| 1st(1st leg): 18/04/2009 18:00 | 2nd (2nd leg): 02/05/2009 17:00 | Winner: Étoile du Sahel | ||||
| 1st(1st leg) | TP Mazembe | - | Ittihad Khémisset | 1:0 | ||
| 2nd (2nd leg) | Ittihad Khémisset | - | TP Mazembe | 0:0 | ||
| 1st(1st leg): 19/04/2009 14:30 | 2nd (2nd leg): 02/05/2009 17:00 | Winner: TP Mazembe | ||||
| 1st(1st leg) | CD 1º de Agosto | - | Al Hilal Omdurman | 3:1 | ||
| 2nd (2nd leg) | Al Hilal Omdurman | - | CD 1º de Agosto | 2:0 | ||
| 1st(1st leg): 19/04/2009 16:00 | 2nd (2nd leg): 03/05/2009 18:00 | Winner: Al Hilal Omdurman | ||||
| 1st(1st leg) | Heartland FC | - | Coton Sport Garoua | 2:1 | ||
| 2nd (2nd leg) | Coton Sport Garoua | - | Heartland FC | 1:1 | ||
| 1st(1st leg): 19/04/2009 16:00 | 2nd (2nd leg): 02/05/2009 15:30 | Winner: Heartland FC | ||||
| 1st(1st leg) | ASEC Mimosas | - | Monomotapa United | 1:0 | ||
| 2nd (2nd leg) | Monomotapa United | - | ASEC Mimosas | 2:0 | ||
| 1st(1st leg): 19/04/2009 17:00 | 2nd (2nd leg): 03/05/2009 14:00 | Winner: Monomotapa United | ||||
