The invention provides a flue gas comprehensive management system applicable to a coke refining oven. The flue gas comprehensive management system comprises an SCR (Selective Catalytic Reduction) denitration system, a residual heat recycling device, a dust removing system and a CFB-FGD (Circular Fluid Bed-Flue Gas Desulfurization) system, wherein the SCR denitration system is used for removing NOX in flue gas; the residual heat recycling device is connected with an outlet of the SCR denitration system and is used for recycling heat in flue gas; the dust removing system is connected with the outlet of the residual heat recycling device and is used for removing dust in the flue gas; and the CFB-FGD system is connected with the outlet of the dust removing system and is used for removing SO2 in the flue gas. According to the flue gas comprehensive management system, by combining the desulfurization, denitration and dust removing systems, the problems that the temperature of the flue gas of the coke oven is too low, the denitration efficiency is low, the SO2 and the dust do not reach the standards and the like are solved by adopting a flue gas reheating system and a circulating heat reutilization manner; meanwhile, the investment cost can be effectively reduced by adopting a manner of removing the dust and the SO2 in the flue gas by CFB-FGD; and the flue gas comprehensive management system has the characteristics of high desulfurization and denitration efficiency, stable system, low investment and operation cost and the like, and can be widely applied to comprehensive management of the flue gas of the coke ovens in industries including energy and chemical industry, metallurgy and the like.