Disclosed is a method and apparatus system for aligning a multi-unit storage system. The alignment system for a storage apparatus includes a first and second storage unit which includes media support locations. The media support locations are capable of supporting at least one storage media element and at least one storage device adapted to store and retrieve data to and from the storage media element associated with at least one of the storage units. The storage apparatus further includes at least one robotic system, an alignment indication device and an alignment means capable of positioning the first and second storage unit substantially in alignment for the robotic system to access the media support locations and the storage device wherein the alignment means cooperates with the alignment indication device to confirm the positioning is in alignment.