This article discusses the relevance of public administration to Muslim minorities in the Philippines and examines how the Philippine government responded to the age-old Muslim problem in terms of policies, structures, and processes, as well as some behavioral patterns in dealing with the Muslim minority issue. It delves into the regional governance in the Autonomous Region in Muslim Mindanao (ARMM), as part of the overall public administration system for Muslim Filipinos. The structures of the Regional Government and the state of regional development within ARMM shall be described and analyzed. The article also takes into account the conflict management and the peace process in Mindanao, particularly the Government of the Republic of the Philippines-Moro National Liberation Front (GRP-MNLF) Agreement of 1996 and the ongoing peace process between the Government of the Republic of the Philippines (GRP) and the Moro Islamic Liberation Front (MILF). Finally, this article reviews the study of public administration in the Philippines in relation to the Muslim minority question, with emphasis on the contributions of the University of the Philippines National College of Public Administration and Governance (UP-NCPAG) and the Mindanao State University College of Public Affairs (MSU-CPA).