| 4. Round | 09/09/2012 | SD Huesca | - | Racing Santander | 1:1 | ||||
| 5. Round | 15/09/2012 | Racing Santander | - | Recreativo Huelva | 3:0 | ||||
| 6. Round | 22/09/2012 | CD Mirandés | - | Racing Santander | 0:1 | ||||
| 7. Round | 29/09/2012 | Racing Santander | - | CD Numancia | 1:1 |  |
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| 8. Round | 06/10/2012 | Real Murcia | - | Racing Santander | 1:0 | ||||
| 10. Round | 21/10/2012 | Racing Santander | - | CD Lugo | 0:0 | ||||
| 11. Round | 28/10/2012 | Elche CF | - | Racing Santander | 1:0 | ||||
| 12. Round | 03/11/2012 | Racing Santander | - | AD Alcorcón | 2:1 | ||||
| 13. Round | 10/11/2012 | Girona FC | - | Racing Santander | 1:0 | ||||
| 14. Round | 17/11/2012 | Racing Santander | - | Villarreal CF | 0:3 | ||||
| 15. Round | 25/11/2012 | FC Barcelona B | - | Racing Santander | 4:1 | ||||
| 17. Round | 09/12/2012 | Real Madrid Castilla | - | Racing Santander | 4:0 | ||||
| 18. Round | 16/12/2012 | Racing Santander | - | CE Sabadell | 0:1 | |
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| 19. Round | 22/12/2012 | CD Guadalajara | - | Racing Santander | 1:1 | ||||
| 25. Round | 09/02/2013 | Racing Santander | - | SD Huesca | 1:0 | ||||
| 27. Round | 23/02/2013 | Racing Santander | - | CD Mirandés | 2:0 | ||||
| 28. Round | 03/03/2013 | CD Numancia | - | Racing Santander | 2:0 |
France