LMTT (Linear Motor based Transfer Technology), which is a new type transfer system used in the maritime container terminal for the port automation, is driven by PM LSM (Permanent Magnetic Linear Synchronous Motor), and largely consists of a controller, shuttle car, and rail. The shuttle car is divided into the frame part, the driving part, and wheels. Because the shuttle car is supported by four wheels in opposition to have five times length for the width of it, a larger deflection than other transfer system using the linear motor occurs. This deflection changes the gap between the mover and the stator, and then brings on an ununiform thrust force. So in this study, we dealt with the structural design for the mover of the shuttle car to generate the uniform thrust force for the efficient control of it. For the investigation, the thickness for each beam of the mover was adopted as design variables, the weight of the mover as objective function, and stress and deflection of the mover as constraint condition.