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| H | BATE Borisov | - | Bohemian FC | 1:0 (1:0) | ||
| R | Bohemian FC | - | BATE Borisov | 3:0 (2:0) | ||
| H: 16.07.2003 17:00 | R: 23.07.2003 20:45 | Sieger: Bohemian FC | ||||
| H | Dinamo Tbilisi | - | KF Tiranë | 3:0 (2:0) | ||
| R | KF Tiranë | - | Dinamo Tbilisi | 4:2 (1:0, 3:0, 3:0) i.E. | ||
| H: 16.07.2003 17:00 | R: 23.07.2003 18:00 | Sieger: KF Tiranë | ||||
| H | Pyunik FC | - | KR Reykjavík | 1:0 (0:0) | ||
| R | KR Reykjavík | - | Pyunik FC | 1:1 (0:0) | ||
| H: 16.07.2003 17:15 | R: 23.07.2003 22:00 | Sieger: Pyunik FC | ||||
| H | Sliema Wanderers | - | Skonto FC | 2:0 (0:0) | ||
| R | Skonto FC | - | Sliema Wanderers | 3:1 (1:0) | ||
| H: 16.07.2003 17:30 | R: 23.07.2003 17:30 | Sieger: Sliema Wanderers | ||||
| H | FC Sheriff | - | FC Flora | 1:0 (0:0) | ||
| R | FC Flora | - | FC Sheriff | 1:1 (0:0) | ||
| H: 16.07.2003 19:00 | R: 23.07.2003 18:00 | Sieger: FC Sheriff | ||||
| H | Omonia Nikosia | - | Irtysh Pavlodar | 0:0 (0:0) | ||
| R | Irtysh Pavlodar | - | Omonia Nikosia | 1:2 (1:0) | ||
| H: 16.07.2003 19:00 | R: 23.07.2003 14:00 | Sieger: Omonia Nikosia | ||||
| H | HB Tórshavn | - | FBK Kaunas | 0:1 (0:0) | ||
| R | FBK Kaunas | - | HB Tórshavn | 4:1 (3:1) | ||
| H: 16.07.2003 20:00 | R: 23.07.2003 16:30 | Sieger: FBK Kaunas | ||||
| H | Vardar Skopje | - | Barry Town FC | 3:0 (1:0) | ||
| R | Barry Town FC | - | Vardar Skopje | 2:1 (1:0) | ||
| H: 16.07.2003 20:00 | R: 23.07.2003 21:00 | Sieger: Vardar Skopje | ||||
| H | CS Grevenmacher | - | Leotar Trebinje | 0:0 (0:0) | ||
| R | Leotar Trebinje | - | CS Grevenmacher | 2:0 (1:0) | ||
| H: 16.07.2003 20:00 | R: 23.07.2003 17:00 | Sieger: Leotar Trebinje | ||||
| H | Glentoran FC | - | HJK Helsinki | 0:0 (0:0) | ||
| R | HJK Helsinki | - | Glentoran FC | 1:0 (0:0) | ||
| H: 16.07.2003 20:30 | R: 23.07.2003 18:00 | Sieger: HJK Helsinki | ||||
