The invention discloses a modified mineral-microorganism coupled water purifying material and a preparation method thereof. The water purifying material is prepared from the following raw materials inparts by mass: 75-85 parts of a carrier material component A, 15-20 parts of a carrier material component B, 5-10 parts of a carrier material component C, 1-3 parts of a modifying agent and 0.1-0.3 part of a microbial preparation. Effects of minerals and effects of microorganisms are coupled into the water purifying material, by Fe3+ and Al3+ which are loaded on the modified carrier body, the surfaces of particles of the carrier material have positive charge, suspended matters with negative charges in polluted water can be adsorbed effectively, and after precipitates are adsorbed, organic pollutants in the precipitates can provide energy for growth of the microorganisms in the early stage; and after organic matters are dispelled completely, under the effect of the microorganisms, the valence state of loaded high-price cations is reduced, along with generation of H+, H+ can be used as biological energy for the microorganisms, therefore, a bottom mud mineralization process is promoted,and finally, a steady-state foundation bed is formed.