| Samedi 20, Dimanche 21 & Samedi 27, Dimanche 28 juin 1998 |
| FC MAKEDONIJA SKOPJE (MAC) - Olympija Ljubljana (SLV) | 4-2 1-1 |
| ATLAY IZMIR (TUR) - Shamrock Rovers (EIRE) | 3-1 3-1 |
| DIOSGYÖRI FC (HON) - Sliema Wanderers (MAL) | 2-0 3-0 |
| VB Vagur (FER) - FC BOBY BRNO (RT) | 0-2 1-3 |
| FC Dniepr Mogilev (BIE) - DEBRECENI VSC (HON) | 2-4 0-6 |
| CS Hobscheid (LUX) - SK HRADEC KRALOVE (RT) | 0-0 1-2 |
| FC RIM. SOBOTA (SLQ) - Omagh Town FC (ILN) | 1-0 2-2 |
| Ethnikos Achna FC (CHY) - ÖRGRYTE IS (SUE) | 2-1 0-4 |
| Austria Vienne (AUT) - RUCH CHORZOW (POL) | 0-1 2-2 |
| TPS TURKU (FIN) - FC Sion (SUI) | 0-1 3-2 |
| Hrvatski Dragovoljac (CRO) - LYNGBY COPENHAGUE FC (DAN) | 1-4 1-0 |
| Ithrottafelagid Leiftur (ISL) - FC VORSKLA POLTAVA (UKR) | 1-0 0-3 |
| FC NATIONAL BUCAREST (ROU) - Hapoël Haïfa (ISR) | 3-1 2-1 |
| FC TORPEDO KUTAISI (GEO) - FC Erebouni-Homenmen (ARM) | 6-0 1-1 |
| INKARAS GRIFAS KAUNAS (LIT) - FC Fekhlesi (AZE) | 1-0 0-1 (5-4 tab) |
| Ebbw Vale AFC (GAL) - KONGSVINGER IL (NOR) | 1-6 0-3 |
| FC ST-GALL (SUI) - JK Tulevik Viljandi (EST) | 3-2 6-1 |
| Stabaek IF (NOR) - FK VOJVODINA NOVI SAD (YOU) | 1-2 2-3 |
| FC Dinaburg Daugavplis (LET) - FK OZETA DUKLA TRENCIN (SLQ) | 1-1 1-4 |
| BALTIKA KALININGRAD (RUS) - FC Spartak Varna (BUL) | 4-0 1-1 |
| Samedi 4, Dimanche 5 & Samedi 11, Dimanche 12 juillet 1998 |
| FC Makedonija Skopje (MAC) - SC BASTIA (FRA) | 1-0 0-7 |
| ATLAY IZMIR (TUR) - Diosgyöri FC (HON) | 1-1 1-0 |
| FC Boby Brno (RT) - ESPANYOL BARCELONE (ESP) | 5-3 0-2 |
| DEBRECENI VSC (HON) - SK Hradec Kralove (RT) | 0-0 1-1 |
| SAMPDORIA GÊNES (ITA) - FC Rim. Sobota (SLQ) | 2-0 1-0 |
| Örgryte IS (SUE) - RUCH CHORZOW (POL) | 2-1 0-1 |
| TPS Turku (FIN) - FC CHINIK IAROSLAVL (RUS) | 0-2 2-3 |
| SAMSUNSPOR (TUR) - Lyngby Copenhague FC (DAN) | 3-0 1-3 |
| Akademisk Boldklub (DAN) - FC VORSKLA POLTAVA (UKR) | 2-2 1-1 |
| Herakles Salonique FC (GRE) - FC NATIONAL BUCAREST (ROU) | 3-1 0-3 |
| FC LOMMEL (BEL) - FC Torpedo Kutaisi (GEO) | 0-1 2-1 |
| WERDER BRÊME (ALL) - Inkaras Grifas Kaunas (LIT) | 4-1 1-0 |
| FC TWENTE (PB) - Kongsvinger IL (NOR) | 2-0 0-0 |
| AUSTRIA SALZBOURG (AUT) - FC St-Gall (SUI) | 3-1 0-1 |
| FK VOJVODINA NOVI SAD (YOU) - Örebro SK (SUE) | 2-0 2-0 |
| FK Ozeta Dukla Trencin (SLQ) - BALTIKA KALININGRAD (RUS) | 0-1 0-0 |
| Samedi 18, Dimanche 19 & Samedi 25 juillet 1998 |
| FC Lommel (BEL) - WERDER BRÊME (ALL) | 1-3 1-2 |
| Crystal Palace (ANG) - SAMSUNSPOR (TUR) | 0-2 0-2 |
| SC BASTIA (FRA) - Atlay Izmir (TUR) | 2-0 2-3 ap |
| FK VOJVODINA NOVI SAD (YOU) - Baltika Kaliningrad (RUS) | 4-1 0-1 |
| FORTUNA SITTARD (PB) - FC Vorskla Poltava (UKR) | 3-0 2-2 |
| FC Twente (PB) - AUSTRIA SALZBOURG (AUT) | 2-2 1-3 |
| AJ Auxerre (FRA) - ESPANYOL BARCELONE (ESP) | 1-1 0-1 |
| FC VALENCE (ESP) - FC Chinik Iaroslavl (RUS) | 4-1 0-1 |
| BOLOGNE (ITA) - FC National Bucarest (ROU) | 2-0 1-3 |
| Harelbeke (BEL) - SAMPDORIA GÊNES (ITA) | 0-1 0-3 |
| RUCH CHORZOW (POL) - Estrella Amadora (POR) | 1-1 1-1 (4-2 tab) |
| DEBRECENI VSC (HON) - Hansa Rostock (ALL) | 1-1 2-1 |
