| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Carigara Bay | Sea/Bay/Gulf | questionable | 46323 |
| East Central Australian Shelf | Sea/Bay/Gulf | endemic | 6390 |
| East China Sea | Sea/Bay/Gulf | native | 47843 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 75154 |
| Lagonoy Gulf | Sea/Bay/Gulf | questionable | 43283 |
| North Australian Shelf | Sea/Bay/Gulf | native | 9819 |
| Ormoc Bay | Sea/Bay/Gulf | questionable | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | endemic | 6390 |
| Pagbilao Bay | Sea/Bay/Gulf | questionable | 11338 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| San Miguel Bay | Sea/Bay/Gulf | questionable | 45674 |
| San Pedro Bay | Sea/Bay/Gulf | questionable | 46241 |
| Shark Bay | Sea/Bay/Gulf | endemic | 116003 |
| Sogod Bay | Sea/Bay/Gulf | questionable | 31411 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | questionable | 6205 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |