| Ecosysteem | Type | Status | Ref. |
|---|---|---|---|
| Aborlan | Sea/Bay/Gulf | native | 114805 |
| Arabian Sea | Sea/Bay/Gulf | native | 3287 |
| Bataraza | Sea/Bay/Gulf | native | 114805 |
| Brooke's Point | Sea/Bay/Gulf | native | 114805 |
| Calamianes Islands | Sea/Bay/Gulf | native | 48613 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Gulf of Aden | Sea/Bay/Gulf | native | 3287 |
| Gulf of Aqaba | Sea/Bay/Gulf | native | 58021 |
| Gulf of Oman | Sea/Bay/Gulf | native | 3287 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 11441 |
| Indian Ocean | Sea/Bay/Gulf | native | 3287 |
| Indonesian Sea | Sea/Bay/Gulf | native | 3287 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| Narra | Sea/Bay/Gulf | native | 114805 |
| Pacific Ocean | Sea/Bay/Gulf | native | 3287 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 55549 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Samar Sea | Sea/Bay/Gulf | native | 29039 |
| Sofronio Española | Sea/Bay/Gulf | native | 114805 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 2858 |
| Tañon Strait | Sea/Bay/Gulf | native | 107276 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 121724 |
| Yellow Sea | Sea/Bay/Gulf | native | 3287 |