SummaryThis paper addresses a trajectory tracking control problem for marine surface vessels (MSVs) in the presence of mismatched conditions and input saturation. Firstly, an MSV model under mismatched conditions is established to solve the problem of unreasonable modeling methods in the existing literature. Secondly, fixed‐time disturbance observers (FXDOs) are designed, where the designed FXDOs not only avoid selecting complicated parameters but also has simple structures, and the disturbance estimation errors can converge to the origin within a setting time. Thirdly, based on the FXDOs and an anti–saturation auxiliary dynamic system, a trajectory tracking control scheme in the presence of mismatched conditions and input saturation is constructed by virtue of fixed‐time integral sliding mode control (SMC), and the actual tracking error signals are uniformly fixed‐time bounded rather than finite‐time one. Fourthly, in order to decrease theoretical calculation values of the original setting time in fixed‐time control, the new setting time under three different parameter conditions is derived, and thus reducing the conservatism. Finally, the simulation results are provided to show the effectiveness and superiority of the designed tracking control scheme.