An original habitat classification system is presented for the first time for the Vologda Region (Northern European Russia). The system is based on objective ecotopic and geobotanical characteristics taking into account anthropogenic impacts. The hierarchical (three-tiered) classification includes 74 habitat groups, combined into 20 habitat complexes and six habitat classes (forest; meadow and intra-forest; mire and intra-mire; aquatic and semi-aquatic; specific; anthropogenic and semi-natural). The classification is designed to analyze the biodiversity of different taxonomic groups, enabling a comprehensive assessment/analysis of territories/objects using a unified and standardized approach for the region.