The rapid relative motion of satellites causes the burst spread-spectrum signals to produce a Doppler frequency shift. In low signal-to-noise ratio (SNR) environments, the traditional acquisition algorithms are limited in their abilities to capture large Doppler frequency shift when signals are seriously disturbed by noise. In view of the above problems, this paper designs a parallel burst spread spectrum signal acquisition algorithm based on pilot information and Partial Match Filter-Fast Fourier Transform (PMF-FFT). The algorithm utilizes pilot information and multi-path parallel processing method to achieve fast acquisition of Doppler frequency shift and PN code, which greatly reduces the acquisition time of burst signal. Firstly, the mathematical model and the acquisition loss of the algorithm are analyzed in detail. Then, the scallop loss of the acquisition system is reduced by zeroing the FFT. Finally, a method of the shortest synchronization segment based on a constant false-alarm rate and a specified detection probability is designed. The simulation results show that the acquisition probability of the proposed algorithm reaches 99 % for burst signals under the -31 dB signal-to-noise ratio when the false alarm probability is 10^-6，which verifies the feasibility of the design method.