The invention discloses an organic-inorganic compound mesoporous membrane and a preparation method and an application thereof, belonging to the field of membrane materials. The preparation method thereof includes three steps, namely the preparation of precursor solution, the filtration preparation of compound mesoporous membrane and the elution of surface active agent in the membrane, namely that the method of filtration is mainly used for assembling inorganic mesoporous materials in pores in a polycarbonate membrane so as to prepare the compound membrane, and the mode of extraction and elution is utilized for eliminating the surface active agent in the compound membrane, thereby obtaining the organic-inorganic compound mesoporous membrane; and the pore diameter of the mesoporous material in the membrane is 3.0nm or 8.0 nm. Compared with the formerly reported inorganic compound mesoporous membrane, the organic-inorganic compound mesoporous membrane has better flexibility, hard breakage and better acid and alkali resistance. Besides, due to the ordering and the nanometer size effect of the pore diameter of the mesoporous structure, the organic-inorganic compound mesoporous membrane can be applied to the fields of molecular dimension selective transfer, membrane separation, etc.