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Harbor(s) (A haven or space of deep water so sheltered by the adjacent land as to afford a safe anchorage for ships)
| name | alternatenames | latitude | longitude | timezone | modification_date |
| Zamboanga Harbor | 6.9 | 122.06667 | Asia/Manila | 2014-03-01 | |
| Urdaneta Harbor | 12.55 | 124.35 | Asia/Manila | 2010-08-14 | |
| Tacloban Harbor | 11.25 | 125 | Asia/Manila | 2014-03-01 | |
| Siwangag Harbor | Siwangag Harbor | 18.54275 | 122.11425 | Asia/Manila | 2012-01-17 |
| Santo Niño Harbor | Santa Nino Harbor,Santo Nino Harbor,Santo Niño Harbor | 11.93333 | 124.45 | Asia/Manila | 2020-06-10 |
| Santa Cruz Inner Harbor | Inner Santa Cruz Harbor,Santa Cruz Harbor,Santa Cruz Inner Harbor | 15.76667 | 119.9 | Asia/Manila | 2012-01-17 |
| Santa Cruz Harbor | Santa Cruz Harbor | 13.48529 | 122.06304 | Asia/Manila | 2016-05-17 |
| San Ildefonso Harbor | Port of San Ildefonso,San Ildefonso Harbor | 17.65 | 120.35 | Asia/Manila | 2012-01-17 |
| San Fernando Harbor | San Fernando Bay,San Fernando Harbor | 16.62706 | 120.30089 | Asia/Manila | 2015-01-02 |
| Salomague Harbor | Salomague Harbor | 17.77174 | 120.41256 | Asia/Manila | 2016-05-19 |
| Romblon Harbor | Port Romblon,Romblon Harbor | 12.58333 | 122.26667 | Asia/Manila | 2012-01-17 |
| Punta Baja Harbor | Punta Baja Harbor | 9.06667 | 117.65 | Asia/Manila | 2012-02-01 |
| Polillo Harbor | Polillo Harbor | 14.71998 | 121.92541 | Asia/Manila | 2012-06-05 |
| Placer Harbor | Placer Harbor | 9.66667 | 125.6 | Asia/Manila | 2013-03-05 |
| Parasan Harbor | Parasan Harbor | 11.70304 | 124.75558 | Asia/Manila | 2015-04-02 |
| Pambuhan Harbor | Pambuhan Harbor,Pambujan Harbor | 11.23333 | 125.55 | Asia/Manila | 2012-01-17 |
| Nasipit Harbor | Nasapit Harbor,Nasipit Harbor | 8.98333 | 125.33333 | Asia/Manila | 2020-11-01 |
| Port of Ozamiz | Port Misamis,Port of Ozamiz | 8.1389 | 123.84601 | Asia/Manila | 2020-11-01 |
| Milbuk Harbor | Milbuk Harbor | 6.15556 | 124.27667 | Asia/Manila | 2012-02-01 |
| Masinloc Harbor | Masinloc Harbor | 15.5364 | 119.9274 | Asia/Manila | 2012-01-17 |
| Masbate Harbor | Masbate Bay,Masbate Harbor,Panalog Harbor | 12.3678 | 123.6059 | Asia/Manila | 2015-03-02 |
| Mariveles Harbor | Mariveles Bay,Mariveles Harbor | 14.42233 | 120.50368 | Asia/Manila | 2019-08-29 |
| Manila South Harbor | Manila Inner Harbor,South Harbor | 14.57566 | 120.96913 | Asia/Manila | 2019-04-30 |
| Manila North Harbor | Manila North Harbour,North Harbor | 14.60611 | 120.95722 | Asia/Manila | 2017-04-30 |
| Manila Harbor | Manila Harbor | 14.58039 | 120.95585 | Asia/Manila | 2019-04-30 |
| Maasin Harbor | Maasin Harbor | 10.13048 | 124.83681 | Asia/Manila | 2016-09-08 |
| Lavezares Harbor | Lavezares Harbor | 12.55 | 124.33333 | Asia/Manila | 2012-02-01 |
| Jolo Harbor | Jolo Anchorage,Jolo Harbor,Sulu Roadstead | 6.06023 | 120.99643 | Asia/Manila | 2018-09-19 |
| Jetafe Harbor | Jetafe Harbor | 10.15 | 124.15 | Asia/Manila | 2012-02-01 |
| Inner Harbor | Inner Harbor | 13.28333 | 123.9 | Asia/Manila | 2012-02-01 |
| Iloilo Harbor | 10.68665 | 122.59243 | Asia/Manila | 2019-08-30 | |
| Hondagua Harbor | Hondagua Harbor | 13.9406 | 122.241 | Asia/Manila | 2020-11-01 |
| Helm Harbor | Helm Harbor | 12.2798 | 125.3433 | Asia/Manila | 2012-01-17 |
| Halsey Harbor | Halsey Harbor | 11.7536 | 119.9269 | Asia/Manila | 2012-01-17 |
| Gunboat Harbor | Gunboat Harbor | 6.9689 | 118.5137 | Asia/Manila | 2012-01-17 |
| Escalante Harbor | Escalante Harbor | 10.83333 | 123.55 | Asia/Manila | 2018-01-09 |
| Davao Harbor | Davao Harbor | 7.05 | 125.65 | Asia/Manila | 2012-02-01 |
| Dalrymple Harbor | Dalrymple Harbor,Port Tulayan,Tulayan Harbor | 6.01667 | 121.31667 | Asia/Manila | 2012-01-17 |
| Coron Harbor | Coron Harbor | 11.9947 | 120.1896 | Asia/Manila | 2012-01-17 |
| Coal Harbor | Coal Harbor | 13.2323 | 123.9278 | Asia/Manila | 2012-01-17 |
| Cebu Harbor | Cebu Strait | 10.28333 | 123.88333 | Asia/Manila | 2014-03-01 |
| Catbalogan Harbor | Catbalogan Harbor | 11.78333 | 124.86667 | Asia/Manila | 2012-02-01 |
| Caramay Harbor | Caramay Harbor | 10.16667 | 119.23333 | Asia/Manila | 2012-02-01 |
| Port Calubian | Port Calubian | 11.4435 | 124.4345 | Asia/Manila | 2012-01-17 |
| Caguait Harbor | Caguait Harbor | 8.93333 | 126.3 | Asia/Manila | 2012-02-01 |
| Bolinao Harbor | Bolinao Harbor,Port Bolinao | 16.41667 | 119.91667 | Asia/Manila | 2012-01-17 |
| Batan Harbor | Batan Harbor | 13.22669 | 124.05615 | Asia/Manila | 2024-04-09 |
| International Port Basin | 14.60833 | 120.94167 | Asia/Manila | 2010-08-14 | |
| Inner Harbor | Inner Harbor | 18.51496 | 122.13835 | Asia/Manila | 2012-01-21 |
| Outer Harbor | Outer Harbor | 18.50286 | 122.12475 | Asia/Manila | 2012-01-21 |
| Magellanes Port | 9.01863 | 125.51852 | Asia/Manila | 2020-11-01 | |
| Port of Ozamis | 8.13884 | 123.84546 | Asia/Manila | 2020-11-01 | |