| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Bay of Bengal | Sea/Bay/Gulf | native | 5736 |
| Calamianes Islands | Sea/Bay/Gulf | native | 48613 |
| Calauag Bay | Sea/Bay/Gulf | native | 47571 |
| Carigara Bay | Sea/Bay/Gulf | native | 46323 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 7300 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Davao Gulf | Sea/Bay/Gulf | native | 43437 |
| East Central Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| East China Sea | Sea/Bay/Gulf | native | 1602 |
| Euphrates and Tigris Delta | River (basin) | native | 115344 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 48497 |
| Gulf of Oman | Sea/Bay/Gulf | native | 129713 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 1632 |
| Hsiao-liu-chiu | Sea/Bay/Gulf | native | 48451 |
| Indian Ocean | Sea/Bay/Gulf | native | 33390 |
| Indonesian Sea | Sea/Bay/Gulf | native | 8631 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Leyte Gulf | Sea/Bay/Gulf | native | 68980 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 5399 |
| Lutao Island | Sea/Bay/Gulf | native | 11104 |
| Mediterranean Sea | Sea/Bay/Gulf | introduced | 72453 |
| Milne Bay | Sea/Bay/Gulf | native | 41468 |
| Moro Gulf | Sea/Bay/Gulf | native | 106380 |
| North Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 7300 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Panay Gulf | Sea/Bay/Gulf | native | 42831 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 96002 |
| Ragay Gulf | Sea/Bay/Gulf | native | 47919 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Samar Sea | Sea/Bay/Gulf | native | 29039 |
| San Miguel Bay | Sea/Bay/Gulf | native | 43275 |
| San Pedro Bay | Sea/Bay/Gulf | native | 46240 |
| Sea of Japan/East Sea | Sea/Bay/Gulf | native | 1602 |
| Sikao Creek | River (basin) | native | 52823 |
| Sogod Bay | Sea/Bay/Gulf | native | 46392 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 12484 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 119494 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 6956 |
| Tawi tawi Bay | Sea/Bay/Gulf | native | 59110 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |
| Tung-hsiao | Sea/Bay/Gulf | native | 43510 |
| Verde Island Passage | Sea/Bay/Gulf | native | 6956 |
| Visayan Sea | Sea/Bay/Gulf | native | 110387 |
| Yellow Sea | Sea/Bay/Gulf | native | 4868 |