| 16. Round | 02/03/2024 | Vysočina Jihlava [Youth] | - | FK Pardubice [Youth] | 2:2 |  |
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| 17. Round | 08/03/2024 | FC Zlín [Youth] | - | Vysočina Jihlava [Youth] | 0:3 | ||||
| 18. Round | 15/03/2024 | Vysočina Jihlava [Youth] | - | Dynamo České Budějovice [Youth] | 4:3 | |
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| 20. Round | 20/03/2024 | FK Dukla Praha [Youth] | - | Vysočina Jihlava [Youth] | 4:2 | ||||
| 21. Round | 06/04/2024 | Vysočina Jihlava [Youth] | - | FK Mladá Boleslav [Youth] | 1:0 |  |
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| 22. Round | 13/04/2024 | Slovan Liberec [Youth] | - | Vysočina Jihlava [Youth] | 2:1 | ||||
| 23. Round | 20/04/2024 | Vysočina Jihlava [Youth] | - | FC Zbrojovka Brno [Youth] | 1:3 | ||||
| 19. Round | 24/04/2024 | Vysočina Jihlava [Youth] | - | AC Sparta Praha [Youth] | 0:5 | ||||
| 24. Round | 27/04/2024 | Slavia Praha [Youth] | - | Vysočina Jihlava [Youth] | 3:1 | ||||
| 25. Round | 04/05/2024 | Vysočina Jihlava [Youth] | - | FK Frýdek-Místek [Youth] | 3:1 | |
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| 26. Round | 11/05/2024 | Banik Ostrava [Youth] | - | Vysočina Jihlava [Youth] | 1:0 | ||||
| 28. Round | 25/05/2024 | Viktoria Plzeň [Youth] | - | Vysočina Jihlava [Youth] | 7:0 | ||||
| 29. Round | 01/06/2024 | Vysočina Jihlava [Youth] | - | 1. FC Slovácko [Youth] | 2:1 | |
Czech Republic