| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Coral Sea and GBR | Sea/Bay/Gulf | native | 403 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 48497 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 403 |
| Indian Ocean | Sea/Bay/Gulf | native | 403 |
| Indonesian Sea | Sea/Bay/Gulf | native | 7050 |
| Kaoping River | River (basin) | native | 36073 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 5399 |
| North Australian Shelf | Sea/Bay/Gulf | native | 403 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 403 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 592 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Ruerhmen River | River (basin) | native | 36073 |
| Shiliao River | River (basin) | native | 36073 |
| Sogod Bay | Sea/Bay/Gulf | native | 46392 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 45419 |
| Tañon Strait | Sea/Bay/Gulf | native | 11337 |
| Tsengwen River | River (basin) | native | 36073 |
| Verde Island Passage | Sea/Bay/Gulf | native | 6956 |
| Yellow Sea | Sea/Bay/Gulf | native | 5193 |