The MST radar is situated at National Atmospheric Research Laboratory (NARL), Gadanki, Andhra Pradesh. This radar is used to investigate the atmospheric dynamics in the regions of Mesosphere, Stratosphere, and Troposphere (MST). MST radar was developed with an active phased antenna array consisting of 1024 Yagi-Uda antenna elements and operated by a frequency of 53 MHz. In this article, the authors introduce new hybrid window functions by using a combination of Kaiser and Blackman windows. The new hybrid window functions exhibit low side lobe levels and narrow beam width of main lobe so that the spectral leakage is minimum. The proposed window based algorithms has been applied to MST radar time series data to compute Doppler power spectrum. After computing Doppler spectrum, the wind parameters like Zonal U, Meridional V, and Wind velocity W can be calculated from the Doppler profile. The obtained wind velocity components of the MST radar data is validated through the Global Positioning System (GPS) Radiosonde data.