The article views approving state control mechanisms of exercise government financing in the system of secondary professional education in Astrakhan region. In the financial and economic crisis conditions the role of public audit in the control system of budget organization is enhanced budgetary organizations in the direction of increasing efficiency of budgetary resources exercising received by organizations from various sources. The article defines the direction of the audit control in order to analyze and evaluate the effectiveness of the estimated costs and disclosed algorithms for solving practical problems of state audit.