This study evaluates the effectiveness of the Weather Research and Forecasting (WRF) model in simulating high-resolution atmospheric conditions for Almaty, Kazakhstan, a city prone to stagnant winter air. While the previously used Bougeault and Lacarrere scheme for parameterizing the planetary boundary layer was applied in high-resolution modeling, the number of vertical levels was increased, and a detailed local climate zones (LCZs) map was included. Ground-based observations from meteorological stations and monitoring stations, remote sensing data, and radiosonde measurements are used to verify the model. Comparison results with ground-based observations show that the WRF model with the LCZ map provides a better representation of the wind and thermal regimes of Almaty compared to the three-class land use map, including in high resolution. A good correspondence of wind direction is demonstrated by comparing the modeling results with pollutant transport plumes recorded by remote sensing data. In addition, a good correlation was found between land surface temperature from satellite data and air temperature simulated by WRF with a resolution of 333 m. A comparison of simulated data and aerological measurements confirmed that downscaling did not have a significant impact on boundary layer calculations. Analysis of turbulent processes showed that the adopted model effectively describes the attenuation and dissipation of turbulent kinetic energy and reflects the typical diurnal variations of meteorological processes in the atmosphere of Almaty in the anticyclonic winter period. The results of high-resolution WRF modeling can form the basis for the development of a hybrid system capable of modeling atmospheric processes at the building level.