| Period | Manager | Country | born |
| 01/07/2020 - 30/06/2022 | Heiko Weber |
|
26/06/1965 |
| 04/01/2019 - 30/06/2020 | Christian Fröhlich |
|
27/10/1977 |
| 01/07/2018 - 03/01/2019 | Kenny Verhoene |
|
15/04/1973 |
| 01/07/2016 - 30/06/2018 | Stefan Treitl |
|
03/06/1972 |
| 01/07/2015 - 30/06/2016 | Georg-Martin Leopold |
|
11/08/1977 |
| 09/01/2015 - 30/06/2015 | Stefan Treitl |
|
03/06/1972 |
| 01/07/2014 - 08/01/2015 | Christian Fröhlich |
|
27/10/1977 |
| 29/01/2007 - 30/06/2007 | Lutz Lindemann |
|
13/07/1949 |
| 01/07/2006 - 28/01/2007 | Olaf Holetschek |
|
12/07/1968 |
| 01/07/2006 - 30/06/2011 | Michael Junker |
|
02/09/1968 |
| 01/07/1993 - 30/06/1994 | Frank Intek |
|
30/10/1958 |
| 01/07/1985 - 30/06/1988 | Rainer Schlutter |
|
14/09/1946 |
| 14/10/1984 - 30/06/1985 | Helmut Stein |
|
09/11/1942 |
| 01/07/1984 - 13/10/1984 | Jürgen Werner |
|
31/03/1942 |
| 01/07/1971 - 30/06/1972 | Fritz Zergiebel |
|
01/09/1915 |
| 01/01/1959 - 30/06/1973 | Karl Schnieke |
|
24/08/1919 |
![FC Carl Zeiss Jena [Women]](https://s.hs-data.com/bilder/wappen/mini/2382.gif?fallback=png "FC Carl Zeiss Jena [Women]"){kind=small}
![FC Carl Zeiss Jena II [Women]](https://s.hs-data.com/bilder/wappen/mini/12519.gif?fallback=png "FC Carl Zeiss Jena II [Women]"){kind=small}
![FC Carl Zeiss Jena [Youth]](https://s.hs-data.com/bilder/wappen/mini/10850.gif?fallback=png "FC Carl Zeiss Jena [Youth]"){kind=small}
![FC Carl Zeiss Jena [Youth B]](https://s.hs-data.com/bilder/wappen/mini/14892.gif?fallback=png "FC Carl Zeiss Jena [Youth B]"){kind=small}
![FC Carl Zeiss Jena II [Youth B]](https://s.hs-data.com/bilder/wappen/mini/37759.gif?fallback=png "FC Carl Zeiss Jena II [Youth B]"){kind=small}
![FC Carl Zeiss Jena [Youth B Women]](https://s.hs-data.com/bilder/wappen/mini/13944.gif?fallback=png "FC Carl Zeiss Jena [Youth B Women]"){kind=small}
![FC Carl Zeiss Jena [Youth C]](https://s.hs-data.com/bilder/wappen/mini/20651.gif?fallback=png "FC Carl Zeiss Jena [Youth C]"){kind=small}