The Sainik Schools are managed by Sainik Schools Society, which is registered under the Societies Registration Act (XXI or 1860). An officer of the Ministry of Defence, nominated to supervise and co-ordinate the functioning of the Sainik Schools, functions as the Honorary Secretary of the Sainik Schools Society. The Honorary Secretary is assisted by officers and staff of the Ministry of Defence including two Inspecting Officers, of the rank of Colonel / Brigadier or equivalent.

Board of Governors

A Board of Governors, functioning under the Chairmanship of the Defence Minister, is the Chief Executive body of the Sainik Schools Society.

Executive Committee

With a view to exercise closer control and supervision over the affairs of Sainik Schools, there is an Executive Committee under the Chairmanship of Defence Secretary.

Local Board of Administration

The General Officer Commanding in Chief of the concerned command, or a senior officer of the rank of Major General nominated by him, functions as the Chairman of the Local Board of Administration. The Principal of the school is the Member Secretary of this Board. The other members normally are two senior government officials and two eminent educationists, all nominated by the State Government, the Collector of the District in which the School is located, the Member of Parliament elected from the constituency in which the school is located, and a parent, duly elected every year from amongst the parents of the cadets studying in the school.