| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Andaman Sea | Sea/Bay/Gulf | native | 9710 |
| Bay of Bengal | Sea/Bay/Gulf | native | 9710 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Davao Gulf | Sea/Bay/Gulf | native | 43437 |
| Indian Ocean | Sea/Bay/Gulf | native | 9710 |
| Indonesian Sea | Sea/Bay/Gulf | native | 8631 |
| Milne Bay | Sea/Bay/Gulf | native | 41468 |
| Pacific Ocean | Sea/Bay/Gulf | native | 28618 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |