| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Coral Sea and GBR | Sea/Bay/Gulf | native | 1602 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Davao Gulf | Sea/Bay/Gulf | native | 45419 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 37792 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 1921 |
| Indian Ocean | Sea/Bay/Gulf | native | 1602 |
| Indonesian Sea | Sea/Bay/Gulf | native | 2334 |
| Insular Pacific-Hawaiian | Sea/Bay/Gulf | native | 3921 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 5399 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| Moro Gulf | Sea/Bay/Gulf | native | 106380 |
| Narra | Sea/Bay/Gulf | native | 114805 |
| North Australian Shelf | Sea/Bay/Gulf | native | 1602 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 1602 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 37792 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Central-American Coastal | Sea/Bay/Gulf | native | 9267 |
| Pacific Ocean | Sea/Bay/Gulf | native | 592 |
| Palawan/North Borneo | Sea/Bay/Gulf | native | 121724 |
| Panay Gulf | Sea/Bay/Gulf | native | 42831 |
| Peru-Galapagos Waters | Sea/Bay/Gulf | native | 9267 |
| Philippine Rise | Seamount | native | 116796 |
| Polynesian Waters | Sea/Bay/Gulf | native | 4690 |
| Ragay Gulf | Sea/Bay/Gulf | native | 47919 |
| Red Sea | Sea/Bay/Gulf | error | 84159 |
| Sarangani Bay | Sea/Bay/Gulf | native | 106380 |
| Sofronio Española | Sea/Bay/Gulf | native | 114805 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 31075 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 130287 |
| Tahiti I. | Sea/Bay/Gulf | native | 4868 |
| Tawi tawi Bay | Sea/Bay/Gulf | native | 59110 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |
| Verde Island Passage | Sea/Bay/Gulf | native | 6956 |
| West Philippine Sea | Sea/Bay/Gulf | native | 130287 |
| West Philippine Sea | Sea/Bay/Gulf | native | 5399 |
| Yellow Sea | Sea/Bay/Gulf | native | 5193 |