| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Andaman Sea | Sea/Bay/Gulf | native | 848 |
| Atulayan Bay | Sea/Bay/Gulf | native | 848 |
| Bohol Sea | Sea/Bay/Gulf | native | 848 |
| Calamianes Islands | Sea/Bay/Gulf | native | 848 |
| Calauag Bay | Sea/Bay/Gulf | native | 848 |
| Carigara Bay | Sea/Bay/Gulf | native | 848 |
| Central Indo-Pacific | sea/bay/gulf | native | 848 |
| Davao Gulf | Sea/Bay/Gulf | native | 848 |
| Indian Ocean | Sea/Bay/Gulf | native | 848 |
| Indonesian Sea | Sea/Bay/Gulf | native | 848 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 848 |
| Lesser Sunda | Sea/Bay/Gulf | native | 848 |
| Leyte Gulf | Sea/Bay/Gulf | native | 848 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 848 |
| Manila Bay | Sea/Bay/Gulf | native | 848 |
| Ormoc Bay | Sea/Bay/Gulf | native | 848 |
| Pacific Ocean | Sea/Bay/Gulf | native | 848 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 848 |
| Panay Gulf | Sea/Bay/Gulf | native | 848 |
| Panguil Bay | Sea/Bay/Gulf | native | 848 |
| Ragay Gulf | Sea/Bay/Gulf | native | 848 |
| Samar Sea | Sea/Bay/Gulf | native | 848 |
| San Miguel Bay | Sea/Bay/Gulf | native | 848 |
| San Pedro Bay | Sea/Bay/Gulf | native | 848 |
| Sogod Bay | Sea/Bay/Gulf | native | 848 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 848 |
| South China Sea | Sea/Bay/Gulf | native | 848 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 848 |
| Sunda Shelf | sea/bay/gulf | native | 848 |
| Tañon Strait | Sea/Bay/Gulf | native | 848 |
| Tawi tawi Bay | Sea/Bay/Gulf | native | 848 |
| Tayabas Bay | Sea/Bay/Gulf | native | 848 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 848 |
| Ulugan Bay | Sea/Bay/Gulf | native | 848 |
| Verde Island Passage | Sea/Bay/Gulf | native | 848 |
| Visayan Sea | Sea/Bay/Gulf | native | 848 |
| Western Coral Triangle | sea/bay/gulf | native | 848 |