A data storage device is disclosed comprising a disk, a head comprising a laser configured to heat the disk while writing data to the disk, and a fly height actuator (FHA) configured to actuate the head vertically over the disk based on an FHA setting. A write laser power applied to the laser during a write operation is calibrated, a first fly height of the head is measured at a first laser power setting, and a second fly height of the head is measured at a second laser power setting different from the first laser power setting. A FHA write setting is generated based on the calibrated write laser power and the first and second fly height measurements, where the FHA write setting is applied to the FHA during the write operation.