Systems and methods in accordance with embodiments of the invention enable feature based high resolution motion estimation from low resolution images captured using an array camera. One embodiment includes performing feature detection with respect to a sequence of low resolution images to identify initial locations for a plurality of detected features in the sequence of low resolution images, where the at least one sequence of low resolution images is part of a set of sequences of low resolution images captured from different perspectives. The method also includes synthesizing high resolution image portions, where the synthesized high resolution image portions contain the identified plurality of detected features from the sequence of low resolution images. The method further including performing feature detection within the high resolution image portions to identify high precision locations for the detected features, and estimating camera motion using the high precision locations for said plurality of detected features.