Lothropp was told that he would be pardoned upon acceptance of terms to permanently leave England with his family along with as many of his congregation members as he could take who would not accept the authority of the Church of England. Lathrop accepted this offer and left for
Plymouth, Massachusetts. He, with his group, sailed on the
Griffin and arrived in Boston September 18, 1634. He married Anna Hammond (
1616-1687) shortly after his arrival.
Lothropp did not stay in Boston long. Within days, he and his group relocated to
Scituate where they "joyned in covenaunt together" along with nine others who preceded them to form the "church of Christ collected att Scituate." The Congregation at Scituate was not a success. Dissension on the issue of baptism as well as other unspecified grievances and the lack of good grazing land and fodder for their cattle caused the church in Scituate to split in 1638.
Lothropp petitioned Governor
Thomas Prence in Plymouth for a "place for the transplanting of us, to the end that God might have more glory and wee more comfort". Thus as Otis says "Mr. Lothropp and a large company arrived in Barnstable, Oct 11, 1639 O.S., bringing with them the crops which they had raised in Scituate." There, within three years they had built homes for all the families and then Lothropp began construction on a larger sturdier
meeting house by Coggin's (or Cooper's) Pond, which was completed in 1644. This building, now part of The Sturgis Library in
Barnstable, Massachusetts is one of John Lothrop's original homes and meeting houses, and is now also the oldest building housing a public library in America.
"He was a man of humble and broken heart spirit, lively in dispensation of the Word of God, studious of peace, furnished with godly contentment, willing to spend and be spent for the cause of the church of Christ."