The SOC estimation of UAV lithium batteries plays a crucial role in the mission planning and safe flight of UAVs. Aiming at existing UAV lithium battery SOC estimation problems, such as low estimation accuracy and poor real-time performance, a real-time online estimation scheme for UAV lithium battery SOC is proposed. A model-based approach is adopted to establish an SOC estimation model on the basis of the Thevenin equivalent circuit model, and a UAV lithium battery online monitoring device is developed to monitor the current and voltage of the UAV lithium battery in real time and import the data into the SOC estimation model in real time for calculation. Using the developed online monitoring device, the current and voltage of the lithium UAV battery are monitored in real time, and the data are imported into the SOC estimation model in real time for calculation, realizing the real-time online estimation of the SOC of the lithium UAV battery. The experimental results show that the program can realize the real-time online estimation of UAV lithium battery SOC, and the estimation error is less than 3%, which meets the requirements of online estimation accuracy of the UAV lithium battery SOC.