Abstract: In a first embodiment of the present invention, a method for operating a device having a device reference clock, in a system including a host with a host reference clock is provided, the method comprising: beginning a link negotiation stage between the device and the host using the device reference clock; during the link negotiation stage, sampling data received from the host to determine a frequency offset of the host reference clock; applying the frequency offset to the device reference clock to create a corrected device reference clock; and completing the link negotiation stage using the corrected device reference clock. This completing may include either continuing the original link negotiation stage or restarting it.