2009–10 UEFA Europa League Second qualifying round Second qualifying round

| Team_1 | Agg_ | Team_2 | _1st_leg | _2nd_leg |
|---|---|---|---|---|
| Sevojno | 1–1 ( a ) | Kaunas | 0–0 | 1–1 |
| Flamurtari Vlorë | 2–8 | Motherwell | 1–0 | 1–8 |
| Zestaponi | 3–4 | Helsingborg | 1–2 | 2–2 ( aet ) |
| Skonto | 1–2 | Derry City | 1–1 | 0–1 |
| Sliema Wanderers | 0–3 | Maccabi Netanya | 0–0 | 0–3 |
| Tobol | 1–3 | Galatasaray | 1–1 | 0–2 |
| Rudar Velenje | 0–5 | Red Star Belgrade | 0–1 | 0–4 |
| Sarajevo | 2–1 | Spartak Trnava | 1–0 | 1–1 |