Motion artifact is a crucial issue in optical coherence tomography angiography (OCTA) top view. A compensated eigenimage filtering (CEF) algorithm is proposed to remove the motion artifact in the top view of OCTA. First, the top view of OCTA is expanded into a series of eigenimages by singular value decomposition (SVD); then, the high-pass eigenimage and the orthogonal compensation product extracted from the first feature image are used to reconstruct the restored image. Experimental results verify that the CEF algorithm can remove stripe noise better, and the image recovered by CEF algorithm has better image quality than the traditional eigenimage filtering algorithm. The CEF algorithm provides a new reference for other scanning imaging systems removing similar stripe noise.