| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Congo | River (basin) | native | 52193 |
| Ethiopian | Zoogeographic realm | endemic | 3203 |
| Kariba | Lake | native | 39194 |
| Kasai River | River (basin) | native | 2970 |
| Kunene | River (basin) | native | 52193 |
| Kwando River | River (basin) | native | 33857 |
| Lake Malawi | Lake | native | 55909 |
| Lake Rukwa | Lake | native | 95585 |
| Lindi-Tshopo Region | River (basin) | native | 106290 |
| Lower Zambezi | River (basin) | native | 95585 |
| Lualaba | River (basin) | native | 45434 |
| Luapula | River (basin) | native | 42135 |
| Middle Zambezi | River (basin) | native | 95585 |
| Mweru | Lake | native | 361 |
| Okavango | River (basin) | native | 52193 |
| Shire | River (basin) | native | 37112 |
| Tanganyika | Lake | native | 52193 |
| Upper Lualaba | River (basin) | native | 45434 |
| Upper Zambezi | River (basin) | native | 95585 |
| Zambezi | River (basin) | native | 13337 |