| 5. Round | 07/09/2024 | Colchester United | - | Bromley FC | 1:1 | ||||
| 6. Round | 14/09/2024 | Morecambe FC | - | Colchester United | 3:3 | ||||
| 7. Round | 21/09/2024 | Colchester United | - | Tranmere Rovers | 3:0 | ||||
| 8. Round | 28/09/2024 | Walsall FC | - | Colchester United | 4:0 | ||||
| 9. Round | 01/10/2024 | Port Vale FC | - | Colchester United | 1:1 | ||||
| 14. Round | 26/10/2024 | Colchester United | - | Salford City | 1:2 | ||||
| 38. Round | 22/03/2025 | Bradford City | - | Colchester United | 4:1 | ||||
| 39. Round | 28/03/2025 | Colchester United | - | Grimsby Town | 1:2 | ||||
| 40. Round | 01/04/2025 | Gillingham FC | - | Colchester United | 1:1 | ||||
| 41. Round | 05/04/2025 | Colchester United | - | Notts County | 1:0 | ||||
| 42. Round | 12/04/2025 | Newport County | - | Colchester United | 0:2 |  |
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| 43. Round | 18/04/2025 | Colchester United | - | Crewe Alexandra | 0:0 | ||||
| 44. Round | 21/04/2025 | Doncaster Rovers | - | Colchester United | 3:0 | ||||
| 45. Round | 26/04/2025 | Salford City | - | Colchester United | 4:1 | ||||
| 46. Round | 03/05/2025 | Colchester United | - | Barrow AFC | 0:0 |
England