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| 1st(1st leg) | Deportivo Toluca | - | El Nacional | 1:0 (0:0) | ||
| 2nd (2nd leg) | El Nacional | - | Deportivo Toluca | 0:2 (0:2) | ||
| 1st(1st leg): 26/09/2006 | 2nd (2nd leg): 10/10/2006 | Winner: Deportivo Toluca | ||||
| 1st(1st leg) | Deportes Tolima | - | CF Pachuca | 2:1 (1:1) | ||
| 2nd (2nd leg) | CF Pachuca | - | Deportes Tolima | 5:1 (1:0) | ||
| 1st(1st leg): 26/09/2006 | 2nd (2nd leg): 10/10/2006 | Winner: CF Pachuca | ||||
| 1st(1st leg) | San Lorenzo | - | Santos FC | 3:0 (1:0) | ||
| 2nd (2nd leg) | Santos FC | - | San Lorenzo | 1:0 (1:0) | ||
| 1st(1st leg): 27/09/2006 | 2nd (2nd leg): 11/10/2006 | Winner: San Lorenzo | ||||
| 1st(1st leg) | Corinthians SP | - | Lanús | 0:0 (0:0) | ||
| 2nd (2nd leg) | Lanús | - | Corinthians SP | 4:2 (3:1) | ||
| 1st(1st leg): 27/09/2006 | 2nd (2nd leg): 11/10/2006 | Winner: Lanús | ||||
| 1st(1st leg) | River Plate | - | Athletico Paranaense | 0:1 (0:1) | ||
| 2nd (2nd leg) | Athletico Paranaense | - | River Plate | 2:2 (1:0) | ||
| 1st(1st leg): 27/09/2006 | 2nd (2nd leg): 12/10/2006 | Winner: Athletico Paranaense | ||||
| 1st(1st leg) | Fluminense RJ | - | Gimnasia de La Plata | 1:1 (0:0) | ||
| 2nd (2nd leg) | Gimnasia de La Plata | - | Fluminense RJ | 2:0 (1:0) | ||
| 1st(1st leg): 28/09/2006 | 2nd (2nd leg): 11/10/2006 | Winner: Gimnasia de La Plata | ||||
| 1st(1st leg) | Nacional | - | Boca Juniors | 2:1 (2:1) | ||
| 2nd (2nd leg) | Boca Juniors | - | Nacional | 1:3 (0:1, 2:1, 2:1) pso | ||
| 1st(1st leg): 28/09/2006 | 2nd (2nd leg): 12/10/2006 | Winner: Nacional | ||||
| 1st(1st leg) | LD Alajuelense | - | Colo-Colo | 0:4 (0:1) | ||
| 2nd (2nd leg) | Colo-Colo | - | LD Alajuelense | 7:2 (4:2) | ||
| 1st(1st leg): 04/10/2006 | 2nd (2nd leg): 10/10/2006 | Winner: Colo-Colo | ||||
