Semifinals
| Team 1 | Agg. | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| FC Nantes Atlantique | 0–1 | Perugia Calcio | 0–1 | 0–0 |
| SV Pasching | 5–1 | Werder Bremen | 4–0 | 1–1 |
| 1. FC Brno | 1–3 | Villarreal CF | 1–1 | 0–2 |
| FC Schalke 04 | 2–1 | FC Slovan Liberec | 2–1 | 0–0 |
| SC Heerenveen | 2–1 | FC Koper | 2–0 | 0–1 |
| HNK Cibalia | 1–8 | VfL Wolfsburg | 1–4 | 0–4 |
Read more about this topic: 2003 UEFA Intertoto Cup