The Philippine Children's Medical Center was established as the Lungsod ng Kabataan (LNK; 'Children's City') on August 10, 1979, through Presidential Decree No.

The Lungsod ng Kabataan was inaugurated on April 29, 1980, in a ceremony attended by Princess Margaret of the United Kingdom.

[4] From 1983 to 1985, PCMC expanded its activities in patient care services, Residency and Fellowship training, and continuing medical education.

[4] Under the leadership of Dr. Julius Almario Lecciones, who has been executive director since 2006, the PCMC has maintained Level IV training hospital accreditation, with an authorized 212-bed capacity, serving patients from newborn to 19 years old, as well as high-risk pregnant women.

[4] In July 2013, the newly constructed OPD building was finally opened to accommodate the increasing number of service patients being referred to PCMC for specialty care.

[4] PCMC also partnered with Rotary Club Makati West – Gift of Life, an international non-government organization, which give way for two open-heart surgery missions for service patients with congenital heart diseases.

[4] The Philippine Children's Medical Center is managed as a government-owned and operated corporation (GOCC) which is attached to the Department of Health.