*Valletta FC 2-2 B36 Torshavn
| 05.07.2016 | B36 Torshavn | 2-1 | Valletta FC | |
| 28.06.2016 | Valletta FC | 1-0 | B36 Torshavn | |
FC Santa Coloma 0-3 Alashkert Martuni *
| 05.07.2016 | Alashkert Martuni | 3-0 | FC Santa Coloma | |
| 28.06.2016 | FC Santa Coloma | 0-0 | Alashkert Martuni | |
Flora Tallinn 2-3 Lincoln Red Imps *
| 06.07.2016 | Lincoln Red Imps | 2-0 | Flora Tallinn | |
| 28.06.2016 | Flora Tallinn | 2-1 | Lincoln Red Imps | |
*The New Saints 5-1 SP Tre Penne
| 05.07.2016 | SP Tre Penne | 0-3 | The New Saints | |
| 28.06.2016 | The New Saints | 2-1 | SP Tre Penne | |