| Period | Manager | Country | born |
| 01/07/2022 - 30/06/2025 | Mounier Raychouni |
|
29/12/1986 |
| 18/10/2021 - 30/06/2022 | Marco Küntzel |
|
22/01/1976 |
| 01/01/2021 - 28/10/2021 | Alexander Sattler |
|
13/11/1992 |
| 01/07/2020 - 11/10/2021 | Andreas Patz |
|
14/10/1983 |
| 04/01/2019 - 30/06/2019 | Kenny Verhoene |
|
15/04/1973 |
| 01/07/2018 - 03/01/2019 | Christian Fröhlich |
|
27/10/1977 |
| 01/07/2016 - 30/06/2018 | Georg-Martin Leopold |
|
11/08/1977 |
| 01/07/2011 - 30/06/2016 | Mark Zimmermann |
|
01/03/1974 |
| 03/01/2008 - 30/05/2011 | Olaf Holetschek |
|
12/07/1968 |
| 01/07/2005 - 31/12/2007 | Henning Bürger |
|
16/12/1969 |
| 21/04/2005 - 30/06/2005 | Stefan Treitl |
|
03/06/1972 |
| 01/07/2004 - 19/04/2005 | Hans-Jürgen Backhaus |
|
24/12/1954 |
| 01/07/2003 - 30/06/2004 | Heiko Weber |
|
26/06/1965 |
| 01/07/1981 - 30/06/1985 | Rainer Schlutter |
|
14/09/1946 |
| 01/07/1972 - 30/06/1974 | Jörg Berger |
|
13/10/1944 |
![FC Carl Zeiss Jena [Youth]](https://s.hs-data.com/bilder/wappen/mittel/10850.gif?fallback=png "FC Carl Zeiss Jena [Youth]")
![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 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}