Traditional short-time fractional Fourier transform (STFrFT) has a single and fixed window function, which can not be adjusted adaptively according to the characteristics of fre-quency and frequency change rate. In order to overcome the shortcomings, the STFrFT method with adaptive window function is proposed. In this method, the window function of STFrFT is ad-aptively adjusted by establishing a library containing multiple window functions and taking the minimum information entropy as the criterion, so as to obtain a time-frequency distribution that better matches the desired signal. This method takes into account the time-frequency resolution characteristics of STFrFT and the excellent characteristics of adaptive adjustment to window func-tion, improves the time-frequency aggregation on the basis of eliminating cross term interference, and provides a new tool for improving the time-frequency analysis ability of complex modulated sig-nals.