The invention relates to a wastewater treatment method combining a three-dimensional electrode and electric Fenton. The method is mainly used to remove toxic and degradation-resistant organic matters. The method comprises the steps of: injecting wastewater to be treated into a reactor; controlling the reaction under a certain condition, and arranging an aerating pipe independently at the bottom of a cathode plate; and meanwhile, arranging an aerating device at the bottom of the reaction device; adding Fe<2+> and Fe<3+> solutions with a certain concentration into a three-dimensional electrolytic system; and after a period of reaction time, standing and discharging water. According to the method, a cathode and hydrogen peroxide generated on the surface of a particle electrode can be effectively used. Reaction of electro-catalysis of the three-dimensional electrode to generate. OH and reaction of generating.OH and HO2. by electric Fenton method can be carried out in the reactor. Therefore, the multifunctional purpose of one reactor can be realized, and the economical efficiency and practicality of process can be improved.