A method and apparatus for compensating an estimated location of a wireless network element from information collected by heterogeneous terminals are provided. The method may include receiving information on a received signal strength indication (RSSI) of a wireless network element and location information of a heterogeneous terminal from the heterogeneous terminal by a wireless network element positioning server, compensating the information on the RSSI received from the heterogeneous terminal into information on an RSSI received from a predetermined reference terminal, using a difference value model of the RSSI of the wireless network element between heterogeneous terminals, the difference model generated in advance, and estimating a location of the wireless network element using the compensated information on the RSSI from the reference terminal and the received location information.