| 1. Round | 12/08/2012 | Sileks Kratovo | - | Metalurg Skopje | 0:2 |  |
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| 2. Round | 19/08/2012 | Metalurg Skopje | - | FK Pelister | 1:0 | |
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| 5. Round | 02/09/2012 | Metalurg Skopje | - | FK Bregalnica Štip | 2:1 | |
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| 7. Round | 22/09/2012 | Metalurg Skopje | - | Napredok Kičevo | 3:2 | |
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| 14. Round | 11/11/2012 | Metalurg Skopje | - | KF Shkëndija 79 | 0:1 |  |
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| 16. Round | 25/11/2012 | FK Bregalnica Štip | - | Metalurg Skopje | 0:1 | |
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| 17. Round | 02/12/2012 | Metalurg Skopje | - | FK Rabotnički | 2:1 | |
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| 23. Round | 03/04/2013 | Metalurg Skopje | - | FK Pelister | 1:0 | |
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| 26. Round | 21/04/2013 | FK Teteks | - | Metalurg Skopje | 1:1 | |
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| 27. Round | 28/04/2013 | Metalurg Skopje | - | FK Renova | 3:1 | |
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| 29. Round | 12/05/2013 | Metalurg Skopje | - | Napredok Kičevo | 2:0 | |
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| 32. Round | 29/05/2013 | Metalurg Skopje | - | Vardar Skopje | 1:1 | |
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| 33. Round | 02/06/2013 | FK Bregalnica Štip | - | Metalurg Skopje | 2:3 | |
North Macedonia