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| Saturday 5th November 2016 | |||
| Sec B – U 15 | Naxxar | 1 – 2 | Hamrun |
| Sec A – U 17 | Valletta | 0 – 1 | Mosta |
| Sec A – U 15 | Pieta | 4 – 1 | Valletta |
| Sec A – U 17 | St. Andrews | 3 – 1 | San Gwann |
| Sec A – U 15 | Birkirkara | 2 – 5 | St. Andrews |
| Sec A – U 15 | Qormi | 1 – 3 | Melita |
| Sec C – U 17 | Zabbar | 9 – 1 | Mqabba |
| Sec E – U 17 | Sirens | 1 – 0 | Marsa |
| Sec D – U 15 | Sirens | 1 – 6 | Attard |
| Sec B – U 15 | Kirkop | 1 – 2 | Floriana |
| Sec B – U 17 | Pembroke | 0 – 2 | Kirkop |
| Sec C – U 17 | Lija/Iklin | 1 – 2 | Fgura |
| Sunday 6th November 2016 | |||
| Sec A – U 17 | Hamrun | 0 – 1 | Birkirkara |
| Sec A – U 15 | Mosta | 0 – 2 | San Gwann |
| Sec B – U 17 | Floriana | 2 – 2 | Paola Hibs |
| Sec B – U 15 | Paola Hibs | 6 – 0 | Pembroke |
| Sec B – U 17 | Sliema | 1 – 2 | Qormi |
| Sec A – U 17 | Balzan | 1 – 1 | Pieta |
| Sec B – U 15 | Balzan | 2 – 1 | Lija/Iklin |
| Sec B – U 17 | Zebbug | 2 – 0 | Melita |
| Sec D – U 15 | Rabat | 0 – 1 | Zebbug |
| Sec C – U 17 | Rabat | 2 – 0 | Swieqi |
| Sec C – U 17 | Tarxien | 4 – 0 | Zejtun |
| Sec D – U 15 | Zejtun | 6 – 1 | Fgura |
| Sec E – U 17 | Xghajra | 2 – 2 | Gzira |
| Sec D – U 15 | Mqabba | 9 – 1 | Ghaxaq |
| Sec D – U 17 | Luqa | 3 – 0 | Ghaxaq |
| Sec E – U 17 | Sta. Venera | 5 – 0 | Kalkara |