| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Arafura Sea | Sea/Bay/Gulf | native | 96968 |
| Arnhem Coast to Gulf of Carpenteria | Sea/Bay/Gulf | native | 96968 |
| Banda Sea | Sea/Bay/Gulf | native | 96968 |
| Bonaparte Coast | Sea/Bay/Gulf | native | 96968 |
| Central and Southern Great Barrier Reef | Sea/Bay/Gulf | native | 96968 |
| Eastern Philippines | Sea/Bay/Gulf | native | 96968 |
| Exmouth to Broome | Sea/Bay/Gulf | native | 96968 |
| Gulf of Papua | Sea/Bay/Gulf | native | 96968 |
| Indian Ocean | Sea/Bay/Gulf | native | 96968 |
| Ningaloo | Sea/Bay/Gulf | native | 96968 |
| Pacific Ocean | Sea/Bay/Gulf | native | 96968 |
| Palawan/North Borneo | Sea/Bay/Gulf | native | 96968 |
| Papua | Sea/Bay/Gulf | native | 96968 |
| South China Sea | Sea/Bay/Gulf | native | 81752 |
| Sulawesi Sea/Makassar Strait | Sea/Bay/Gulf | native | 96968 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 96968 |
| Sunda Shelf/Java Sea | Sea/Bay/Gulf | native | 96968 |
| Torres Strait Northern Great Barrier Reef | Sea/Bay/Gulf | native | 96968 |
| West Philippine Sea | Sea/Bay/Gulf | native | 81752 |