The starter generator is the key component of the aircraft’s starter generation system. A high power density, efficiency, and reliability are essential for an aircraft’s starter generator. The configuration of the windings is closely related to the performance of the starter generator. In this paper, the winding performance analysis and design are studied. Considering the skin effect, circulation effect, and proximity effect, a calculation model of winding loss under high-frequency operation is established. The motor performance under different winding connections is compared. Through a comprehensive comparison of starting performance, generation loss, and process performance differences, the optimum configuration of windings is identified. The performance of the starter generator including winding resistance, current, and no-load loss was tested on the prototype platform to verify the rationality and correctness of the analysis and design methods.