| Competition: | Kategoria e Dytë |
| Season: | 1999–2000 |
| Winners: | Besëlidhja |
| Relegated: | None |
| Matches: | 162 |
| Total Goals: | 492 |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 Kategoria e Dytë was the 53rd season of a second-tier association football league in Albania.
Besëlidhja Lezhë was promoted to the 2000–01 National Championship, with Besa Kavajë had another chance to promotion, playing a tie against 13th-placed team of 1999–2000 National Championship, KF Elbasani.
Besa Kavajë was promoted to the 2000–01 National Championship, with Elbasani being relegated down to the 2000–01 Kategoria e Dytë.