Taking the low-speed maglev vehicle in Maglev Transportation Engineering R&D Center of Tongji University as the research object, the design and optimization of control algorithm for multi-point levitation under nonlinear time-varying disturbance is discussed in this paper. Firstly, the nonlinear mathematical model of multi-point levitation is established, and the output errors of each levitation point are compensated based on cross-coupling control algorithm. Compared with the single-point PID control algorithm, the feedback control algorithm based on cross-coupling can overcome the shortcomings of the previous control algorithm based on the hypothesis of complete decoupling and has high control accuracy and strong robustness. Finally, the effectiveness of the cross-coupling feedback control algorithm is verified by experiments.