||To develop a controller that deals with noise-corrupted training data and rule uncertainties for interconnected multi-input–multi-output (MIMO) non-affine nonlinear systems with unmeasured states, an interval type-2 fuzzy system is integrated with an observer-based hierarchical fuzzy neural controller (IT2HFNC) in this paper. Also, an H∞ control technique and a strictly positive real Lyapunov (SPR-Lyapunov) design approach are employed for attenuating the influence of both external disturbances and fuzzy logic approximation error on the tracking of errors. Moreover, the proposed hierarchical fuzzy structure can greatly reduce the number of adjusted parameters of the IT2HFNC, and then, the problem of online computational burden can be solved. According to the design of the interval type-2 fuzzy neural network and H∞ control technique, the IT2HFNN controller can improve its robustness to noise, uncertainties, approximation errors, and external disturbances. Simulation results are reported to show the performance of the proposed control system mode and algorithms.