In wartime, the two main ejection energy storage systems on an aircraft carrier may be hit, and then the battery pack will be partially damaged. The timing of alternating ejections, established by the dynamic balance of power between the two, can be disrupted. To solve this problem, a related ejection timing re-recovery control strategy based on the coupling of the electromagnetic ejection system is proposed. First, a coupling model of the electromagnetic ejection system including a battery, a supercapacitor (SC), a line motor (LM) and a coupling device is established. Secondly, based on the analysis of the dynamic characteristics of the ejection system, an optimization strategy for charge-discharge power is proposed. That is, by coordinating the interconnection device and energy storage control, in the initial condition of the unbalanced incomplete state, the power alternating dynamic balance of the two systems in their respective ejection cycles is realized, and then the normal ejection timing is restored. To solve the problem of one-sided depletion of the battery in the process of dynamic charging and discharging, an adaptive droop control method based on state of charge (SOC) equilibrium is proposed. Finally, Matlab/Simulink software is used for modeling and simulation, and this verifies the effectiveness and superiority of the proposed strategy in realizing alternating ejection timing re-recovery and avoiding unilateral depletion of the battery.