A heating, ventilation, and air conditioning (HVAC) system for a building includes a plurality of actuation devices operable to affect one or more variables in the building, a plurality of sensors configured to measure the variables affected by the actuation devices, and a controller. The controller is configured to operate the actuation devices to affect one or more of the measured variables by providing an actuation signal to the actuation devices and to receive sensor response signals from the sensors. The sensor response signals indicate an effect of the actuation signal on the measured variables. For each of the sensor response signals, the controller is configured to calculate a similarity metric indicating a similarity between the sensor response signal and the actuation signal. The controller is configured to automatically establish a device pairing including one of the actuation devices and one of the sensors based on the similarity metrics.