A system is disclosed that enables the use of an incomplete SONAR array matrix in a correlation SONAR system. An improvement is achieved through the generation of a correlation-array model matrix of hydrophone correlations, based on an independent estimate of the ship's velocity, such as from an inertial navigator. Meanwhile, estimates of the missing values are generated based on one or more values from the model matrix, an interpolation of values from the SONAR array matrix itself, or some combination thereof. Regardless of how the missing values are generated, the model matrix provides a basis for comparison with the SONAR array matrix, which is populated with the estimated values, wherein subsequent comparisons are made between successive iterations of the model matrix and the SONAR array matrix. By applying the disclosed technique, a correlation SONAR system with incomplete data is able to continue working, and in the presence of a greater number of hydrophone failures than before.