The invention provides an optimized coordinated control method and system of a multi-energy complementary system. The method comprises that the new energy power is calculated according to a pre-established new energy power output model to obtain a new energy power value; according to the new energy power value, a pre-established optimized control model of the multi-energy complementary system is solved via a multi-objective optimization algorithm, and control schemes that satisfies optimization objects of the optimized control model of the multi-energy complementary system are obtained; a final control scheme is determined according to the preset priority of the optimization objects of the optimized control model; and the optimization objects include maximizing economical benefit of the multi-energy complementary system and making the output power of the system smoothest. According to technical schemes of the invention, output of different energies is adjusted reasonably via the established optimized coordinated control model, influence of fluctuation of new energy on the power grid is reduced, and the output power of the whole complementary system is improved.