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with the fault diagnosis of complex system requirements increase, nonlinear filtering technique for complex system diagnosis has increasingly become one of the hot and difficult problems in research.Aiming at the systematic mutation fault diagnosis problem in traditional particle filter is presented, this paper presents a new method of noise improved particle filter fault diagnosis. The noise statistical model method of particle filter, the state estimation is obtained by the particle filter, and is used for fault detection of information distribution in all probability. Finally, through the simulation experiment and numerical simulation demonstrate that the proposed methods are effective in the fault diagnosis of complex system, and have high accuracy.