The invention provides a complex intelligent nano delivery system for treating EML4-ALK fusion mutant non-small cell lung cancer and a preparation method of the complex intelligent nano delivery system. According to the method, in accordance with the demands of the EML4-ALK fusion mutant non-small cell lung cancer, two targets, namely ALK and micRNA-301, are selected from conducting gene therapy, and apoptosis is induced by promoting the expression of cancer suppressor genes BIM in the EML4-ALK type lung cancer. In the invention, a gold nano-shell is taken as a core, interference sequences of the ALK and the micRNA-301 are linked to the surface of the gold nano-shell by virtue of chemical bonds, and adriamycin is loaded to the outermost layer through an electrostatic adsorption action. With the adoption of the structure, the stability of nucleic acid drugs is enhanced, and in addition, the nucleic acid drugs can be gathered in a tumor site, so that an integrated therapy mode combining thermal therapy, chemical therapy and gene therapy is achieved; therefore, a new method and new thinking are provided for the treatment of the EML4-ALK fusion mutant non-small cell lung cancer.