The invention discloses a nonlinear interference control method and a nonlinear interface control system for a permanent magnet linear synchronous motor (PMLSM). According to the control method, an online estimated compensating voltage value ud of a wavelets neural network (WNN) is added on the basis of up+uf of the conventional composite feedforward proportional differential control, and the sum of up, uf and ud is used as the control voltage U(t) of a stator of the PMLSM, namely the control voltage U(t) is equal to up+uf+ud. The WNN is a three-layer forward network, and ud is the sum of omega1psi1, omega2psi2, ..., omegajpsij, ..., and omegampsim. A learning signal of the WNN is an output value of a proportional differential controller. The control system comprises a digital signal processing controller, a power driving module connected with the stator of the PMLSM, and a rotor displacement sensor arranged on the PMLSM. The WNN is used for effectively compensating interference such as PMLSM thrust fluctuation and frictional force and errors of a fixed parameter model, and tracking accuracy can be improved by more than 2.7 times; and the control system can be implemented by universal hardware, and is convenient to popularize and use.