The magnetic shape memory alloy (MSMA)-based actuator, as a new type of actuator, has a great application prospect in the micro-precision positioning field. However, the input-to-output hysteresis nonlinearity largely hinders its wide application. In this paper, a Takagi–Sugeno fuzzy neural network (TSFNN) model based on the modified bacteria foraging algorithm (MBFA) is innovatively utilized to describe the complex hysteresis nonlinearity of the MSMA-based actuator, and the parameters of TSFNN are optimized by the MBFA. The TSFNN is a combination of the fuzzy-logic system and neural network; thus, it has the capability of approximating the nonlinear mapping function and self-adjustment and is suitable for hysteresis modeling. The MBFA, which can obtain better optimization values, is employed for the parameter identification procedure. To demonstrate the effectiveness of the proposed model, a TSFNN based on the gradient descent algorithm (GDA) is used for comparison. Experimental results clearly show that the proposed modeling method can accurately describe the hysteresis nonlinearity of the MSMA-based actuator and has significance for its future application.