The invention discloses a preparation method of a special-morphology micro nano structural lithium-rich manganese-based cathode material, and belongs to the technical field of novel energy material energy storage material preparation processes. The method comprises the following steps: dissolving a manganese salt and a nickel salt into distilled water according to a ratio to obtain an A liquid; dissolving a homogeneous precipitant weighed according to a ratio into distilled water to obtain a B liquid, introducing a certain ratio of an ionic liquid into the B liquid, performing full stirring, and performing uniform mixing; mixing the A liquid and the mixed B liquid, and performing full stirring; transferring the mixed liquid to a hydrothermal reaction kettle, performing a hydrothermal reaction, performing cooling to room temperature, performing centrifugal separation, performing washing, and performing drying to obtain a manganese-based precursor material; and finally grinding the precursor and a certain ratio of lithium carbonate, performing uniform mixing, performing pre-sintering, and performing calcination to obtain the lithium-rich manganese-based cathode material. The method provided by the invention solves the problems of high energy consumption, long consumed time and difficulty in control of product topography characteristics in the preparation process in the prior art.