In this paper, we investigate phase retrieval algorithm for the single particle X-ray imaging data. We present a variance-reduced randomized Kaczmarz (VR-RK) algorithm for phase retrieval. The VR-RK algorithm is inspired by the randomized Kaczmarz method and the Stochastic Variance Reduce Gradient Descent (SVRG) algorithm. Numerical experiments show that the VR-RK algorithm has a faster convergence rate than randomized Kaczmarz algorithm and the iterative projection phase retrieval methods, such as the hybrid input output (HIO) and the relaxed averaged alternating reflections (RAAR) methods. The VR-RK algorithm can recover the phases with higher accuracy, and is robust at the presence of noise. Experimental results on the scattering data from individual particles show that the VR-RK algorithm can recover phases and improve the single particle image identification.