The three-dimensional (3D) geoelectric model of the Kuznetsk-Alatau folded area is reconstructed by magnetotelluric inversion using 3D fitting. It is established that the zones of ore mineralization within the Batenevsky massif are confined to the subvertical faults characterized by the electric resistivity of 100–300 Ω m. Blocks with ρ ≈ 10?100 Ω m are identified at a depth below 10 km in the western part of the model. The blocks are located close to the areas marked by the increased thermal flux, reduced seismic velocities, and elevated Moho boundary. This is probably associated with the presence of the rift zone in this area.