A method and apparatus for allocating resources for communication between Base Stations (BSs) in an in-band communication system can be provided by a BS. A method for allocating resources for communication between BSs, performed by a Mobile Station (MS) in an in-band communication system includes receiving information about an interference-free expected area from a BS communicating with the MS through an access link, transmitting to the BS feedback information indicating whether the MS is located in the interference-free expected area based on the information about the interference-free expected area, receiving from the BS a message requesting measurement of a fronthaul link for communication between BSs based on the feedback information, and transmitting a measurement result of the fronthaul link to the BS.