| 18. Jornada | 10.01.2025 | Malut United FC | - | Madura United | 0:1 | ||||
| 20. Jornada | 24.01.2025 | Persita Tangerang | - | Madura United | 1:1 |  |
|||
| 21. Jornada | 01.02.2025 | Madura United | - | Persis Solo (LI) | 2:0 | ||||
| 22. Jornada | 08.02.2025 | Madura United | - | PSBS Biak | 0:0 | ||||
| 23. Jornada | 15.02.2025 | Madura United | - | Dewa United FC | 3:1 | ||||
| 24. Jornada | 22.02.2025 | Persib Bandung | - | Madura United | 0:0 | ||||
| 25. Jornada | 02.03.2025 | Madura United | - | PSM Makassar | 1:3 | ||||
| 27. Jornada | 06.04.2025 | Madura United | - | Persija Jakarta | 1:0 | |
|||
| 29. Jornada | 20.04.2025 | Persebaya Surabaya | - | Madura United | 1:0 | ||||
| 28. Jornada | 24.04.2025 | Arema Cronus FC | - | Madura United | 0:1 | ||||
| 30. Jornada | 28.04.2025 | Madura United | - | Persik Kediri | 2:1 | ||||
| 31. Jornada | 04.05.2025 | Semen Padang | - | Madura United | 2:1 | ||||
| 32. Jornada | 10.05.2025 | Madura United | - | Borneo FC | 2:3 | |
|||
| 34. Jornada | 24.05.2025 | Madura United | - | PSS Sleman | 0:3 |
Colombia