An apparatus for compensating for pixel distortion while reproducing hologram data includes an extraction unit, a determination and calculation unit, a table, and a compensation unit. The extraction unit extracts a reproduced data image from a reproduced image frame including the reproduced data image and borders. The determination and calculation unit determines position values of edges of the extracted reproduced data image, and calculates average magnification error values of pixels within line data from position values of start and end point pixels thereof, which are based on the determined position values of the edges. The table stores misalignment compensation values for the pixels within the line data, wherein the misalignment compensation values correspond to predetermined references for average magnification error values. The compensation unit compensates for pixel positions in the extracted reproduced data image using the misalignment compensation values that correspond to the calculated average magnification error values.