| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Andaman Sea | Sea/Bay/Gulf | native | 45255 |
| Arabian Sea | Sea/Bay/Gulf | native | 4537 |
| Bay of Bengal | Sea/Bay/Gulf | native | 45255 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Gulf of Aden | Sea/Bay/Gulf | native | 11441 |
| Honda Bay | Sea/Bay/Gulf | native | 71000 |
| Indian Ocean | Sea/Bay/Gulf | native | 3424 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 43020 |
| Malacca Strait | Sea/Bay/Gulf | native | 121464 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 3424 |
| San Miguel Bay | Sea/Bay/Gulf | native | 45674 |
| Sogod Bay | Sea/Bay/Gulf | native | 31411 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 31075 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 2858 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |
| Tung-hsiao | Sea/Bay/Gulf | native | 43510 |