| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Davao Gulf | Sea/Bay/Gulf | native | 43437 |
| Indian Ocean | Sea/Bay/Gulf | questionable | 1602 |
| Insular Pacific-Hawaiian | Sea/Bay/Gulf | native | 1602 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Lutao Island | Sea/Bay/Gulf | native | 11104 |
| Pacific Ocean | Sea/Bay/Gulf | native | 4868 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 94637 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 42484 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |
| Verde Island Passage | Sea/Bay/Gulf | native | 107852 |
| Yellow Sea | Sea/Bay/Gulf | native | 4868 |