The invention relates to a method and apparatus used in the MBR technology for recharging underground water with municipal sewage. The method comprises the following processes: secondary treated water of municipal sewage treatment plants is used as a raw material and undergoes microbial degradation, membrane filtration and an ozone reaction; then the treated secondary treated water seeps into the ground in a manner of surface flooding irrigation and enters into phreatic stratum through a soil aerated zone. The technology of advanced treatment of municipal sewage provided in the invention enables a plurality of pollutants in municipal sewage to be removed economically and effectively, effluent to meet water quality standards for three kinds of underground water and safe recharge of underground water to be realized.