| 1. Round | 13/08/1988 | KRC Genk | - | RSC Anderlecht | 0:3 | ||||
| 2. Round | 17/08/1988 | KRC Genk | - | KV Mechelen | 1:1 | ||||
| 3. Round | 20/08/1988 | Royal Antwerp FC | - | KRC Genk | 4:0 | ||||
| 4. Round | 24/08/1988 | KRC Genk | - | KSV Waregem | 0:1 | ||||
| 5. Round | 31/08/1988 | Standard Liège | - | KRC Genk | 5:0 | ||||
| 6. Round | 03/09/1988 | KRC Genk | - | KSK Beveren | 1:0 | ||||
| 8. Round | 17/09/1988 | KRC Genk | - | Lierse SK (old) | 0:0 | ||||
| 9. Round | 21/09/1988 | KRC Genk | - | RWD Molenbeek | 0:0 |  |
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| 10. Round | 25/09/1988 | KRC Mechelen | - | KRC Genk | 4:0 | ||||
| 11. Round | 01/10/1988 | KRC Genk | - | K. Beerschot VAV | 2:2 | ||||
| 12. Round | 08/10/1988 | RSC Charleroi | - | KRC Genk | 0:0 | ||||
| 13. Round | 22/10/1988 | KRC Genk | - | KV Kortrijk | 0:2 | ||||
| 14. Round | 05/11/1988 | RFC Liège | - | KRC Genk | 2:1 | ||||
| 15. Round | 19/11/1988 | KRC Genk | - | Sporting Lokeren | 2:1 | ||||
| 20. Round | 28/01/1989 | KRC Genk | - | Royal Antwerp FC | 1:1 | |
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| 22. Round | 18/02/1989 | KRC Genk | - | Standard Liège | 1:2 |  |
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| 23. Round | 26/02/1989 | KSK Beveren | - | KRC Genk | 2:1 | ||||
| 26. Round | 19/03/1989 | RWD Molenbeek | - | KRC Genk | 3:0 | ||||
| 30. Round | 09/04/1989 | KV Kortrijk | - | KRC Genk | 6:2 | ||||
| 32. Round | 23/04/1989 | Sporting Lokeren | - | KRC Genk | 0:0 |
Belgium