One of the main sources of water pollution is industry, including food production enterprises. Wastewater of this industry is intensively polluted with easily decomposable organic substances, which can cause great damage to water bodies. Existing wastewater treatment technologies are extremely energy-consuming due to deficiencies in the analysis of the composition of liquid media, which can reveal an excess of maximum permissible concentrations of not more than ten percent of the total amount of normalized pollution. In the present paper, data on the existing wastewater discharge obtained by the laboratory method are presented, and the level of their pollution is estimated. Information about the developed Microbiological Treatment System and its ability to reduce pollutant concentrations is presented: for suspended solids by 17 times, for mass concentration of fats by 17 times, for BOD5 (biochemical oxygen demand) by 45 times, for COD (chemical oxygen demand) by 10 times, in artificially created storage ponds.