[2] The consulate was upgraded to a legation on February 17, 1950, when President Elpidio Quirino appointed Manuel V. Gallego, who had served as his Secretary of Education, as the first minister to Indonesia.

[8] Security was tightened as a result of the bombing,[9] believed to have been masterminded by leading Jemaah Islamiyah (JI) operative Fathur Rahman al-Ghozi.

The current chargé d'affaires is Gonaranao B. Musor, while the last resident ambassador was Gina A. Jamoralin, who was appointed to the position by President Bongbong Marcos on September 1, 2022.

[24] The Embassy has also played a key role in promoting cultural and educational ties between the two countries, particularly with Muslim students in the Philippines studying in Indonesia.

[25] In 2015, the Embassy was criticized for its role in mishandling the case of Mary Jane Veloso,[26] the only Filipino on death row in Indonesia,[27] with members of the House of Representatives' committee on overseas workers affairs demanding the recall of its consul general.