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| 1st(1st leg) | FK Saturn | - | Etzella Ettelbruck | 7:0 (4:0) | ||
| 2nd (2nd leg) | Etzella Ettelbruck | - | FK Saturn | 1:1 (0:0) | ||
| 1st(1st leg): 05/07/2008 15:00 | 2nd (2nd leg): 13/07/2008 17:00 | Winner: FK Saturn | ||||
| 1st(1st leg) | Grasshopper Club Zürich | - | KS Besa | 2:1 (0:0) | ||
| 2nd (2nd leg) | KS Besa | - | Grasshopper Club Zürich | 0:3 (0:0) | ||
| 1st(1st leg): 05/07/2008 17:00 | 2nd (2nd leg): 12/07/2008 16:30 | Winner: Grasshopper Club Zürich | ||||
| 1st(1st leg) | FK Grbalj Radanovići | - | Sivasspor | 2:2 (2:2) | ||
| 2nd (2nd leg) | Sivasspor | - | FK Grbalj Radanovići | 1:0 (0:0) | ||
| 1st(1st leg): 05/07/2008 17:00 | 2nd (2nd leg): 13/07/2008 17:00 | Winner: Sivasspor | ||||
| 1st(1st leg) | Sturm Graz | - | Shakhter Soligorsk | 2:0 (1:0) | ||
| 2nd (2nd leg) | Shakhter Soligorsk | - | Sturm Graz | 0:0 (0:0) | ||
| 1st(1st leg): 05/07/2008 17:00 | 2nd (2nd leg): 13/07/2008 16:00 | Winner: Sturm Graz | ||||
| 1st(1st leg) | FK Teplice | - | Budapest Honvéd | 1:3 (0:1) | ||
| 2nd (2nd leg) | Budapest Honvéd | - | FK Teplice | 0:2 (0:0) | ||
| 1st(1st leg): 05/07/2008 17:00 | 2nd (2nd leg): 12/07/2008 17:00 | Winner: Budapest Honvéd | ||||
| 1st(1st leg) | FC Tiraspol | - | Tavriya Simferopol (1958-2014) | 0:0 (0:0) | ||
| 2nd (2nd leg) | Tavriya Simferopol (1958-2014) | - | FC Tiraspol | 3:1 (2:0) | ||
| 1st(1st leg): 05/07/2008 18:00 | 2nd (2nd leg): 13/07/2008 17:00 | Winner: Tavriya Simferopol (1958-2014) | ||||
| 1st(1st leg) | PSFC Chernomorets | - | ND Gorica | 1:1 (0:0) | ||
| 2nd (2nd leg) | ND Gorica | - | PSFC Chernomorets | 0:2 (0:0) | ||
| 1st(1st leg): 05/07/2008 18:00 | 2nd (2nd leg): 12/07/2008 19:00 | Winner: PSFC Chernomorets | ||||
| 1st(1st leg) | Germinal Beerschot | - | Neftçi PFK | 1:1 (1:1) | ||
| 2nd (2nd leg) | Neftçi PFK | - | Germinal Beerschot | 1:0 (0:0) | ||
| 1st(1st leg): 05/07/2008 19:00 | 2nd (2nd leg): 12/07/2008 17:00 | Winner: Neftçi PFK | ||||
| 1st(1st leg) | Hibernian FC | - | IF Elfsborg | 0:2 (0:1) | ||
| 2nd (2nd leg) | IF Elfsborg | - | Hibernian FC | 2:0 (1:0) | ||
| 1st(1st leg): 06/07/2008 15:00 | 2nd (2nd leg): 12/07/2008 14:30 | Winner: IF Elfsborg | ||||
| 1st(1st leg) | FK Ekranas | - | Rosenborg BK | 1:3 (1:2) | ||
| 2nd (2nd leg) | Rosenborg BK | - | FK Ekranas | 4:0 (1:0) | ||
| 1st(1st leg): 06/07/2008 15:00 | 2nd (2nd leg): 13/07/2008 15:00 | Winner: Rosenborg BK | ||||
| 1st(1st leg) | OFK Beograd | - | Panionios GSS | 1:0 (0:0) | ||
| 2nd (2nd leg) | Panionios GSS | - | OFK Beograd | 3:1 (2:0) | ||
| 1st(1st leg): 06/07/2008 15:30 | 2nd (2nd leg): 13/07/2008 17:00 | Winner: Panionios GSS | ||||
| 1st(1st leg) | FK Rīga | - | Bohemian FC | 1:0 (1:0) | ||
| 2nd (2nd leg) | Bohemian FC | - | FK Rīga | 2:1 (1:0) | ||
| 1st(1st leg): 06/07/2008 16:00 | 2nd (2nd leg): 12/07/2008 19:00 | Winner: FK Rīga | ||||
| 1st(1st leg) | TPS Turku | - | Odense BK | 1:2 (1:1) | ||
| 2nd (2nd leg) | Odense BK | - | TPS Turku | 2:0 (1:0) | ||
| 1st(1st leg): 06/07/2008 16:30 | 2nd (2nd leg): 13/07/2008 17:00 | Winner: Odense BK | ||||
| 1st(1st leg) | FK Renova | - | Bnei Sachnin FC | 1:2 (0:1) | ||
| 2nd (2nd leg) | Bnei Sachnin FC | - | FK Renova | 1:0 (1:0) | ||
| 1st(1st leg): 06/07/2008 17:00 | 2nd (2nd leg): 12/07/2008 18:00 | Winner: Bnei Sachnin FC | ||||
