1. Round | 11/08/2006 | Kickers Offenbach | - | FC Carl Zeiss Jena | 2:2 | ||||
2. Round | 18/08/2006 | FC Carl Zeiss Jena | - | Eintracht Braunschweig | 0:0 | ||||
3. Round | 25/08/2006 | FC Carl Zeiss Jena | - | 1. FC Köln | 3:2 | ||||
4. Round | 15/09/2006 | Rot-Weiss Essen | - | FC Carl Zeiss Jena | 4:4 | ||||
5. Round | 24/09/2006 | FC Carl Zeiss Jena | - | SC Paderborn 07 | 1:1 | ||||
6. Round | 01/10/2006 | TSV 1860 München | - | FC Carl Zeiss Jena | 2:0 | ||||
7. Round | 15/10/2006 | FC Carl Zeiss Jena | - | SpVgg Unterhaching | 0:2 | ||||
8. Round | 20/10/2006 | Karlsruher SC | - | FC Carl Zeiss Jena | 4:1 | ||||
9. Round | 27/10/2006 | FC Carl Zeiss Jena | - | TuS Koblenz | 2:0 | ||||
10. Round | 03/11/2006 | Hansa Rostock | - | FC Carl Zeiss Jena | 1:1 | ||||
11. Round | 08/11/2006 | FC Carl Zeiss Jena | - | SpVgg Greuther Fürth | 1:1 | ||||
12. Round | 12/11/2006 | Erzgebirge Aue | - | FC Carl Zeiss Jena | 5:1 | ||||
13. Round | 17/11/2006 | FC Carl Zeiss Jena | - | SC Freiburg | 2:1 | ||||
14. Round | 24/11/2006 | MSV Duisburg | - | FC Carl Zeiss Jena | 4:0 | ||||
15. Round | 03/12/2006 | FC Carl Zeiss Jena | - | Wacker Burghausen | 0:2 |