|Season||Round||1st Leg||2nd Leg||Aggregate|
|2021/22||Q1||BIRKIRKARA vs La Fiorita 1967 (SMR)||1-0||1-1||(2-1)|
|Q1||UE Sant Julià (AND) vs GZIRA UNITED||0-0||1-1||(1-1)(3-5 pen)|
|Q1||Mosta vs FK Spartak Trnava (SVK)||3-2||0-2||3-4|
|Q2||SS Folgore (SMR) vs Hibernians||1-3|
|Q2||Olimpija Ljubljana (SLO) vs Birkirkara||1-0|
|Q2||Gzira United vs HNK Rijeka (CRO)||0-2|
- Names of local clubs in uppercase indicate that the club moved to the next round.
- Teams eliminated from the UEFA Champions League preliminary and first qualifying round, enter the UEFA Europa Conference League.
- As from 2021/22, the away-goals rule has been abolished.