| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Carigara Bay | Sea/Bay/Gulf | native | 46323 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Indian Ocean | Sea/Bay/Gulf | native | 12517 |
| Indonesian Sea | Sea/Bay/Gulf | native | 5978 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 5399 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 5978 |
| Red Sea | Sea/Bay/Gulf | error | 84159 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 130287 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47588 |
| West Philippine Sea | Sea/Bay/Gulf | native | 130287 |
| West Philippine Sea | Sea/Bay/Gulf | native | 5399 |