| 3. Round | 21/07/2016 | Club Nacional | - | Sol de América | 2:1 | ||||
| 4. Round | 26/07/2016 | Club Nacional | - | Sportivo Luqueño | 1:2 | ||||
| 6. Round | 07/08/2016 | Club Nacional | - | General Díaz | 1:2 |  |
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| 7. Round | 14/08/2016 | Guaraní | - | Club Nacional | 1:0 | |
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| 8. Round | 20/08/2016 | Club Nacional | - | Club Olimpia | 3:4 | |
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| 10. Round | 09/09/2016 | Club Nacional | - | General Caballero ZC | 4:1 | |
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| 11. Round | 18/09/2016 | River Plate | - | Club Nacional | 2:3 | ||||
| 12. Round | 25/09/2016 | Deportivo Capiatá | - | Club Nacional | 0:1 | ||||
| 13. Round | 02/10/2016 | Club Nacional | - | Cerro Porteño | 1:6 | ||||
| 14. Round | 15/10/2016 | Sol de América | - | Club Nacional | 0:1 |  |
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| 15. Round | 24/10/2016 | Sportivo Luqueño | - | Club Nacional | 2:1 | |
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| 17. Round | 07/11/2016 | General Díaz | - | Club Nacional | 0:2 | |
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| 18. Round | 20/11/2016 | Club Nacional | - | Guaraní | 1:1 | |
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| 19. Round | 26/11/2016 | Club Olimpia | - | Club Nacional | 2:1 | |
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| 20. Round | 03/12/2016 | Club Nacional | - | Club Rubio Ñu | 3:1 | ||||
| 21. Round | 11/12/2016 | General Caballero ZC | - | Club Nacional | 1:2 | |
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| 22. Round | 17/12/2016 | Club Nacional | - | River Plate | 2:0 |
Paraguay