SummaryThe underlying intention of this work is to devise a tracking control protocol for the nonlinear cyber‐physical systems that are prone to external disturbances, time‐varying input delays and deception attacks. To be more precise, the modified repetitive tracking controller is formulated for ensuring the asymptotic tracking outcomes of the assayed system with the aim of addressing the impacts caused by external disturbances as well as input time‐varying delays. First of all, the nonlinearities of the investigated cyber‐physical systems are efficaciously approximated by the interval type‐2 fuzzy model approach. Further, the predictor technique is utilized in this study to mitigate the influence of input delays and specifically, the extended Smith predictor approach is employed. That is, the transfer function is inserted into the conventional Smith predictor's main feedback channel. In parallel, the active disturbance rejection technique is executed to reject and estimate the external disturbance impacts on the assayed system. Notably, the improved equivalent‐input‐disturbance estimator approach is tied up and more precisely, the estimated disturbances obtained from the afore‐said estimator are incorporated into the proposed controller. Whilst the deception attacks are characterized as a stochastic distributed random variable that are governed by the Bernoulli distribution. With all of this as a backdrop, the appropriate delay‐dependent constraints are expressed in the context of linear matrix inequalities by employing the Lyapunov stability theory. In line with the predetermined criteria, the relations for computing the required gain matrices are also formulated. Ultimately, the simulation analysis is carried out using two distinct numerical examples to confirm the importance of the proposed control mechanism from the perspective of theory as well as practice.