| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Calamianes Islands | Sea/Bay/Gulf | native | 59110 |
| Davao Gulf | Sea/Bay/Gulf | native | 106380 |
| Indian Ocean | Sea/Bay/Gulf | native | 402 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| North Australian Shelf | Sea/Bay/Gulf | native | 402 |
| Pacific Ocean | Sea/Bay/Gulf | native | 402 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |