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A method for removing a radioactive thorium element in a rare earth mineral, comprising the following steps : mixing the rare earth mineral and selenium dioxide in water; enabling the radioactive thorium element and the selenium dioxide to undergo a reaction by means of a hydrothermal method; cooling to form crystals; and separating the crystals so as to remove the radioactive thorium element. The method is low in energy consumption and high in separation ratio, can implement one-step curing and separation, and effectively overcomes the defects in a conventional method that separating operations are redundant and the amount of organic and radioactive waste liquid is large.