| SWI17 | FC THUN 1898 | ||||||||||
| season | cup | round | opponents | result | scorers | result | scorers | ||||
| 05-06 | E1 | P2 | FK Dynamo Kyiv | A | 2-2 | Lustrinelli, Aegerter | H | 1-0 | Bernardi | ||
| P3 | Malmö FF | A | 1-0 | Pimenta | H | 3-0 | Bernardi, Lustrinelli (2) | ||||
| G1 | Arsenal FC London | A | 1-2 | Ferreira | H | 0-1 | |||||
| G1 | AC Sparta Praha | H | 1-0 | Hodić | A | 0-0 | |||||
| G1 | AFC Ajax Amsterdam | A | 0-2 | H | 2-4 | Lustrinelli, Pimenta | |||||
| E3 | 16 | Hamburger SV | H | 1-0 | Pimenta | A | 0-2 | ||||
| 11-12 | E3 | P2 | KF Vllaznia Shkodër | A | 0-0 | H | 2-1 | Rama, Lüthi | |||
| P3 | US Cittŕ di Palermo | A | 2-2 | Lüthi, Schneider | H | 1-1 | ^ | Lezcano | |||
| P4 | Stoke City FC | H | 0-1 | A | 1-4 | Wittwer | |||||
| 13-14 | E3 | P2 | SK Chikhura Sachkhere | H | 2-0 | Sanogo, Schirinzi | A | 3-1 | Lomashvili (o.g.), Cássio, M.Schneuwly | ||
| P3 | BK Häcken Göteborg | A | 2-1 | Zuffi (2) | H | 1-0 | Sanogo | ||||
| P4 | FK Partizan Beograd | A | 0-1 | H | 3-0 | C.Schneuwly, M.Schneuwly, Zuffi | |||||
| G1 | SK Rapid Wien | H | 1-0 | C.Schneuwly | A | 1-2 | Sadik | ||||
| G1 | KRC Genk | A | 1-2 | Josef Martínez | H | 0-1 | |||||
| G1 | FK Dynamo Kyiv | A | 0-3 | H | 0-2 | ||||||
| 15-16 | E3 | P2 | MK Hapoel Be'er Sheva | A | 1-1 | Frontino | H | 2-1 | Ferreira (2) | ||
| P3 | FC Vaduz | H | 0-0 | A | 2-2 | ^ | Rojas, Buess | ||||
| P4 | AC Sparta Praha | A | 1-3 | Sutter | H | 3-3 | Ferreira (2), Munsy | ||||
| 19-20 | E3 | Q3 | FK Spartak Moskva | H | 2-3 | Hefti, Rapp | A | 1-2 | Glarner | ||