In the XRD spectrum analysis, there is a lot of measurement noise. It will cause the influence which can not be ignored for the elemental composition analysis. In this paper, the noise of YBaCuO nano powder in XRD was studied. In order to eliminate its influence, Wigner-Ville Distribution (WVD) was used to improve the anti-noise capability. First, based on a comprehensive study of various noise signal characteristics and model structures, the anti-noise capability of WVD was systematically studied in accordance with theoretical analysis. Then, proposed SPWVD and RSPWVD were studied and used to improve anti-noise capability. Last, by simulation experiment, compared and verified the conclusion. The results show that RSPWVD for additive noise and non-zero mean multiplicative noise has better anti-noise capability. It could eliminate the influence of the noise of YBaCuO nano power in XRD.