In this study is offered the methodology of mapping of geoecological conditions and pollution of the Arctic seas environment based on geochemical zoning. That has found reflection on the maps of the Barents sea. At making up of maps the materials on lithology and mineralogy of bottom sediments, data on the content of chemical elements in deposits and suspensions and information about quantitative distribution and benthos spices structure are used. The characteristics of conditions of natural environment are analyzed in view of features of a bottom relief.