| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Bangweulu | River (basin) | native | 42135 |
| Chobe | River (basin) | native | 37065 |
| Congo | River (basin) | native | 45616 |
| Ethiopian | Zoogeographic realm | endemic | 7248 |
| Kariba | Lake | native | 39194 |
| Kunene | River (basin) | native | 52193 |
| Limpopo | River (basin) | native | 52193 |
| Linyanti Swamp | Lake | native | 37065 |
| Lower Zambezi | River (basin) | native | 95585 |
| Lualaba | River (basin) | native | 36901 |
| Middle Zambezi | River (basin) | native | 95585 |
| Mweru | Lake | native | 41590 |
| Okavango | River (basin) | native | 52193 |
| Rukwa | Lake | native | 27292 |
| Rusizi | River (basin) | native | 36901 |
| Sabaki | River (basin) | native | 7248 |
| Shire | River (basin) | native | 37112 |
| Tanganyika | Lake | native | 27628 |
| Upper Lualaba | River (basin) | native | 2970 |
| Upper Zambezi | River (basin) | native | 95585 |
| Zambezi | River (basin) | native | 52193 |