Provided are a three-dimensional reconstruction method, apparatus and system of a dynamic scene, a server and a medium. The method includes: acquiring multiple continuous depth image sequences of the dynamic scene, where the multiple continuous depth image sequences are captured by an array of drones equipped with depth cameras; fusing the multiple continuous depth image sequences to establish a three-dimensional reconstruction model of the dynamic scene; obtaining target observation points of the array of drones through calculation according to the three-dimensional reconstruction model and current poses of the array of drones; and instructing the array of drones to move to the target observation points to capture, and updating the three-dimensional reconstruction model according to multiple continuous depth image sequences captured by the array of drones at the target observation points.