A method to calibrate the geometries of hydrophone arrays using the sound emitted from nearby ships, is presented. The calibration problem is formulated as a simultaneous localization and mapping (SLAM) estimation problem, where the locations and geometries of the arrays are viewed as unknown map states and the position of the source is viewed as the unknown dynamic state. Two models for the geometry of the arrays are presented. The first model does not impose any constraint on array geometry, whereas the second model takes into account the known maximum distance between the hydrophones. The performance of the proposed calibration method is evaluated using data from two PASS-2447 Omnitech Electronics Inc. 56-element hydrophone arrays. Tests with three data sets show that array geometries in the north-east plane can be consistently estimated. Only the second model provides consistent results in the depth direction. The calibration of the array geometries is shown to increase source localization accuracy significantly.