| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5285 |
| Calamianes Islands | Sea/Bay/Gulf | native | 48613 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 48497 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 37816 |
| Indian Ocean | Sea/Bay/Gulf | native | 2334 |
| Indonesian Sea | Sea/Bay/Gulf | native | 2334 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 2334 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 2334 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| West Philippine Sea | Sea/Bay/Gulf | native | 48613 |