The invention relates to a technological method for controlling the disinfection by-product and pathogenic microorganism risk of drinking water, belonging to the field of drinking water treatment. The drinking water is produced by combining biological pretreatment, pre-ozonation, main ozonation, active carbon filter and conventional coagulation-precipitation-sand filtration-disinfectant fluid treatment technology, and the method is a feed water treatment technological method which is developed for the micro-pollution raw water and controls the disinfection by-product and pathogenic microorganism heath risk in the water purifying process. The micro-polluted raw water sequentially enters a biological pretreatment tank, a pre-ozonation contact tank, a folded-plate flocculating tank, an inclined-tube sedimentation tank, a sand filter, a main ozonation contact tank, an active carbon filter and a disinfection tank, and finally flows into a clean water reservoir. Through the application of the biological pretreatment, two-level ozone oxidation and active carbon technology, the removal effect on the turbidity, organic matters, the disinfection by-product precursor, the virus microorganism, bacteria microorganism and the like is obviously improved, and the water quality and safety are obviously superior to those of the traditional coagulation sedimentation technology.