The headquarters of the Philippine Coast Guard is located at the South Harbor in Port Area near Intramuros and Ermita . The Philippine Navy on the other hand has its headquarters in Naval Station Jose Andrada located along Roxas Boulevard in Malate . Furthermore , the AFP Joint Task Force @-@ National Capital Region was created in 2012 to ensure peace and stability in Metro Manila , of which Manila is a part . It bears the same functions of the deactivated National Capital Regional Command , although it operates on a much smaller size than its predecessor .