In a disk drive, a modified adaptive runout compensation algorithm is employed to measure non-coherent repeatable runout (RRO) of a track. The adaptive runout compensation algorithm is used to control the transducer head to follow the average RRO of adjacent tracks during the process of computing correction factors for non-coherent RRO for a given track. The adaptive runout compensation algorithm does not completely adapt to both the coherent and non-coherent RRO of a particular track because the transducer head is positioned over any one particular track for only a limited number of revolutions.