Yes, the civilian government of the Philippines has control over the military.
The Philippines had an unbroken tradition of civilian control of the military until martial law was imposed in 1972. Under Article 2 of the 1987 Constitution, civilian authority is again, "at all times, supreme over the military." Many military leaders found this difficult to accept. Under Marcos, they could count on authorization to take a hard line against communists and Muslim separatists, on opportunities to run civilian businesses and industries, and on being consulted on most matters.
