| Competition: | NOFV-Oberliga |
| Season: | 1999–2000 |
| Winners: | F.C. Hansa Rostock (A), FSV Hoyerswerda |
| Promoted: | No team |
| Relegated: | Frankfurter FC Viktoria, Köpenicker SC, FC Eintracht Schwerin, Hertha Zehlendorf, SV Warnemünde Fußball, TSG Neustrelitz, VfB Leipzig (A), SV Fortuna Magdeburg, SSV Erfurt-Nord, 1. Suhler SV, 1. SV Gera, SV Schott Jena, Bornaer SV |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 season of the NOFV-Oberliga was the sixth season of the league at tier four (IV) of the German football league system.
The NOFV-Oberliga was split into two divisions, NOFV-Oberliga Nord and NOFV-Oberliga Süd. FC Schönberg 95 from the northern division entered into a play-off with southern champions FSV Hoyerswerda for the right to play FC Rot-Weiß Erfurt for a place in the following season's Regionalliga. FC Schönberg 95 won the first round of matches, but lost 4–2 on aggregate to FC Rot-Weiß Erfurt, and would have to play for a further season in the NOFV-Oberliga. As a result, no team was promoted, and due to Regionalliga restructuring, a total of 13 teams were relegated to the lower leagues.