"Stonewall Jackson" spent the second half of May 1970 in upkeep at New London, then headed south on 1 June 1970. She stopped at the United States Naval Academy at Annapolis, Maryland, from 7 June to 10 June 1970 for midshipman indoctrination tours, then put to sea for special operations. She entered Charleston, South Carolina, to off-load ballistic missiles during the first week in July 1970, then shaped a course for New London, arriving on 10 July 1970. On 15 July she entered the shipyard of the Electric Boat Division of General Dynamics at Groton, Connecticut, for conversion to carry the Poseidon C-3 ballistic missile system.