| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Andaman Sea | Sea/Bay/Gulf | native | 2107 |
| Arabian Sea | Sea/Bay/Gulf | native | 5297 |
| Australian | Zoogeographic realm | native | 2107 |
| Bay of Bengal | Sea/Bay/Gulf | native | 2107 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| East China Sea | Sea/Bay/Gulf | native | 47843 |
| Erhjen River | River (basin) | native | 36073 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 2107 |
| Indian Ocean | Sea/Bay/Gulf | native | 5297 |
| Indonesian Sea | Sea/Bay/Gulf | native | 7050 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Manila Bay | Sea/Bay/Gulf | native | 35686 |
| Mekong | River (basin) | native | 12693 |
| North Australian Shelf | Sea/Bay/Gulf | native | 2107 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 2107 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 2107 |
| Oriental | Zoogeographic realm | native | 7050 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 2107 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Persian Gulf | Sea/Bay/Gulf | native | 11441 |
| Ruerhmen River | River (basin) | native | 36073 |
| Samar Sea | Sea/Bay/Gulf | native | 29039 |
| San Miguel Bay | Sea/Bay/Gulf | native | 45158 |
| Sikao Creek | River (basin) | native | 52823 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 31075 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 280 |
| West Philippine Sea | Sea/Bay/Gulf | native | 35686 |