Disclosed is a method for compensating for motion blur when performing a 3D scanning of at least a part of an object by means of a 3D scanner, where the motion blur occurs because the scanner and the object are moved relative to each other while the scanning is performed, and where the motion blur compensation comprises: —determining whether there is a relative motion between the scanner and the object during the acquisition of the sequence of focus plane images; —if a relative motion is determined, performing a motion compensation based on the determined motion; and —generating a 3D surface from the sequence of focus plane images.