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An efficient method for solving vibration equations is the basis of the vibration analysis of a cracked multistage blade–disk–shaft system. However, dynamic equations are usually time varying and nonlinear, and the time required for solving is greatly increased accompanied by an increase in the model order caused by the multistage system and the nonlinearity caused by cracks. In this article, an efficient method for solving the time varying and nonlinear vibration equation is investigated. In the proposed method, the time varying terms are transformed into constant terms, while the local nonlinear matrix of the cracked blade is separated from the assembly stiffness matrix under the constraint of proper orthogonal decomposition (POD) transformation rules. Furthermore, the POD transformations of the constant terms and the linear assembled stiffness matrix can be implemented in the pretreatment steps to achieve a more efficient POD reduction operation. This research provides a method for efficiently performing the comprehensive and rapid analysis of nonlinear vibration characteristics of rotor systems.