According to one embodiment, a magnetic disk drive includes a disk, a first microactuator, a second microactuator and a servo controller. The disk comprises a first surface and a second surface. The first and second microactuators allow first and second heads associated with the first and second surfaces to make micromotion based on first and second operation amounts, respectively. The servo controller provides a third operation amount to the first microactuator as the first operation amount and provides an operation amount obtained by inverting a polarity of a frequency component with a particular frequency contained in the third operation amount, to the second microactuator as the second operation amount, if the third operation amount is generated as an operation amount to be provided to the first microactuator in a particular mode in which the first surface is used as a tracking surface.