Visual evoked potentials (VEPs) are time-varying signals typically buried in relatively large background noise known as the electroencephalogram (EEG). In this paper, an adaptive noise cancellation with neural network-based fuzzy inference system (NNFIS) was used and the NNFIS was carefully designed to model the VEP signal. It is assumed that VEP responses can be modelled by NNFIS with the centres of its membership functions evenly distributed over time. The weights of NNFIS are adaptively determined by minimizing the variance of the error signal using the least mean squares (LMS) algorithm. As the NNFIS is dynamic to any change of VEP, the non-stationary characteristics of VEP can be tracked. Thus, this method should be able to track the VEP. Four sets of simulated data indicate that the proposed method is appropriate to estimate VEP. A total of 150 trials are processed to demonstrate the superior performance of the proposed method.