| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Aegean Sea | Sea/Bay/Gulf | introduced | 93646 |
| Agulhas Current | Sea/Bay/Gulf | native | 6205 |
| Andaman Sea | Sea/Bay/Gulf | native | 6205 |
| Arabian Sea | Sea/Bay/Gulf | native | 6205 |
| Atlantic Ocean | Sea/Bay/Gulf | native | 6205 |
| Bay of Bengal | Sea/Bay/Gulf | native | 6205 |
| Carigara Bay | Sea/Bay/Gulf | native | 46323 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 6205 |
| Davao Gulf | Sea/Bay/Gulf | native | 43437 |
| East China Sea | Sea/Bay/Gulf | native | 6205 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 6205 |
| Gulf of Aden | Sea/Bay/Gulf | native | 6205 |
| Gulf of Oman | Sea/Bay/Gulf | native | 6205 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 6205 |
| Indian Ocean | Sea/Bay/Gulf | native | 6205 |
| Indonesian Sea | Sea/Bay/Gulf | native | 7050 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Lake Mainit | Lake | native | 81829 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Manila Bay | Sea/Bay/Gulf | native | 35686 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| Naujan Lake | Lake | native | 13446 |
| North Australian Shelf | Sea/Bay/Gulf | native | 6205 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 6205 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 6205 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 6205 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 6205 |
| 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 | Sea/Bay/Gulf | native | 559 |
| Sikao Creek | River (basin) | native | 52823 |
| Sogod Bay | Sea/Bay/Gulf | native | 46392 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 6205 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South Aegean | Sea/Bay/Gulf | introduced | 93646 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 10558 |
| Taal Lake | Lake | native | 12165 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |
| Visayan Sea | Sea/Bay/Gulf | native | 110387 |
| Yellow Sea | Sea/Bay/Gulf | native | 6205 |
| Zambezi | River (basin) | native | 39494 |