A novel method, two-step stimulated Brillouin scattering(SBS) structure, was put forward to controlling modulation and improving pulse shape quality in the SBS pulse compression system. And this method, which uses two compression stages to extract sub-peaks’ energy to the peak, is likely to be a new approach to obtain pulses with short duration and high shape quality. The performance of the two-step SBS pulse compression system were investigated theoretically and experimentally. The experiment investigation was conducted using CCl4 and FC-72 as the SBS media. High-quality pulse shapes with no modulation were obtained, which agrees well with the simulation results.