The heart of the National Ignition Facility is a megajoule-class laser system consisting of 192 beams used to drive inertial confinement fusion reactions. A recently installed system of programmable, liquid-crystal-based spatial light modulators adds the capability of arbitrarily shaping the spatial beam profiles in order to enhance operational flexibility. Its primary intended use is for introducing "blocker" obscurations to shadow isolated flaws on downstream optical elements. To optimize the system, both the position and shape of the obscurations must be carefully verified prior to high-fluence operations. An automatic alignment algorithm is used to perform detection and estimation of the imposed blocker centroid positions compared to their intended locations. Furthermore, in order to minimize the spatially-varying nonlinear response of the device, a calibration of the local magnification is performed at multiple sub-image locations. In this paper, we describe the control and associated image processing of this device that helps to enhance the performance of the overall system.