The present subject matter is directed to a system and method for sequencing Light Detecting and Ranging (LIDAR) sensor beam signals from a LIDAR sensor mounted on a nacelle of a wind turbine with the rotor position of the wind turbine so as to improve signal availability. More specifically, the method includes generating, via the LIDAR sensor, one or more laser signals towards the rotor of the wind turbine, the rotor having one or more rotor blades. The method also includes receiving, via a controller, a rotor position of the rotor of the wind turbine. Thus, the method further includes coordinating, via a control algorithm programmed within the controller, the rotor position with the one or more laser signals of the laser sensor so as to minimize interference between the laser signal(s) and the rotor blades during rotation of the rotor.