While a lieutenant general holding the position of 1st Army Region Commander, Anupong was an appointed member of the Council for National Security, the group that staged the 2006 Thai coup d'état and deposed the caretaker government of Prime Minister Thaksin Shinawatra.

After the coup d'état in 2014, Anupong became an advisor to the junta which calls itself "National Council for Peace and Order" (NCPO), and in August 2014 he became minister of interior in General Prayut Chan-o-cha's post-coup government.

Like his direct successor General Prayut and former defence minister Prawit Wongsuwan, Anupong is a member of the "Eastern Tigers" clique within the army.

[2][3][4] On 2 October 2008, Prime Minister Samak Sundaravej, following a civil insurgency of the People's Alliance for Democracy ("Yellow Shirts") demanding his resignation or impeachment, imposed a state of emergency throughout Bangkok and appointed Anupong as the leader of the officers in charge.

[8] During the 2010 "Red Shirts" uprising, the government of Abhisit Vejjajiva appointed General Anupong chief officer of the Centre for the Resolution of the Emergency Situation (CRES), in charge of restoring law and order.