In this paper, position tracking control of an autonomous helicopter is presented. Combining an LQR method and a proportional control forms a simple PD control. Since LQR control gains are set for the velocity control of the helicopter, a position tracking error occurs. To minimize a position tracking error, neural network is introduced. Specially, in the frame of the reference compensation technique for teaming neural network compensator, a position tracking error of an autonomous helicopter can be compensated by neural network installed in the remotely located ground station. Considering time delay between an auto-helicopter and the ground station, simulation studies have been conducted. Simulation results show that the LQR with neural network performs better than that of LQR itself.