During the first ten years of the existence of the village, the people depended on rare visits of missionaries for the little religious instruction they received. The settlers in the region were divided as to religious faith; the Presbyterians, though the most numerous, were the least able to offer financial support for any regular religious establishment. Missionaries occasionally penetrated to this spot, and now and then a travelling Baptist, or a Methodist, preached in a tavern, schoolhouse or barn. On August 28, 1795, a letter appeared in the Otsego Herald deploring the general indifference to religion which prevailed in the settlement, and calling for a public meeting to organize a church congregation. The Rev. Elisha Mosely, a Presbyterian minister, was thereupon engaged for six months, and during that period held the first regular religious services in Cooperstown. He preached the first Thanksgiving sermon in the village, on November 26, 1795, in the Court House.

Through the vigorous efforts of the Rev. Nathaniel Stacy, an itinerant preacher, the doctrine of Universalism gained a strong foothold in this region. Under his ministrations the society at Fly Creek was organized in 1805, said to be the first society of the Universalist denomination established in this State. Stacy was a man of small stature, a rapid speaker, full of Biblical quotations, apt in comparing the Old and New Testaments, and happy in the use of vivid illustrations. The vehemence and rapidity of his utterance sometimes sprinkled with saliva the hearers seated near him, which gave occasion for a famous taunt flung at Ambrose Clark, one of Stacy's converts and an early settler of Pierstown, when his brother Abel said that "Ambrose had rather be spit upon by Stacy than to hear the gospel preached."

In 1797, the Rev. Thomas Ellison, rector of St. Peter's Church, Albany, with the Patroon, both regents of the university of the State, visited the Cherry Valley academy, and then extended their journey to Cooperstown, where Dr. Ellison held service and preached in the Court House. This was the first time that the services of the Episcopal Church were held in the village. Dr. Ellison was an Englishman, a graduate of Oxford, a king's man, and a staunch defender of the Church against all dissent. He was a sporting parson, of convivial habits, and after his first visit to Cooperstown frequently enjoyed the hospitality of Judge Cooper, whom he joined in sundry adventures.

The Presbyterians and Congregationalists in and about Cooperstown formed themselves into a legal society on December 29, 1798. This church was regularly organized with the Rev. Isaac Lewis, a Presbyterian minister, as pastor, on October 1, 1800, and the Presbyterian organization has ever since continuously existed in Cooperstown. The Presbyterian church building was erected in 1805, and has not been materially altered since 1835, when some changes in the structure were made. The carpenters who built the church were twin brothers, Cyrus and Cyrenus Clark. They were assisted by Edmund Pearsall, who was noted for his rapid work and skill, as well as for his daring exploits at "raisings." When the steeple of the church was raised Pearsall astounded the village by standing on his head on the top of one of the posts near the summit.

The pastor of this church for more than twenty years during its early days was the Rev. John Smith, a tall, strongly-built man, who loomed large in the pulpit as a champion of old-fashioned orthodoxy. His manner of delivery was soporific, his voice thick and monotonous, but none could gainsay the learning and intellectual power of his discourses.

Mony Groat was sexton of the church. He performed also the office of policeman in the gallery during the service, going about with a cane, and rapping the heads of disorderly boys. In winter his duties were multiplied. The church was heated by a stove placed above the middle alley, supported by a platform sustained upon four posts, and those having pews near the pulpit had to walk directly underneath. Several times during the service on cold days the sexton used to come up the aisle with his ladder and basket of fuel, place his ladder in position, mount the platform, replenish the fire, descend the ladder, and make his exit, ladder and all.

Perhaps because it was the first church edifice in the village the Presbyterian church came into use sometimes for celebrations of a civic nature. The first Otsego County Fair, Tuesday, October 14, 1817, was held in this house of worship. The Otsego County Agricultural Society had been organized in January of that year, and the officers of the first fair were: president, Jacob Morris; recording secretary, John H. Prentiss; corresponding secretary, James Cooper, who had not yet begun his literary career.

The exercises in the church followed an elaborate programme, including prayers, vocal and instrumental music, and the formal award of premiums.

After the premiums had been awarded the corresponding secretary read a letter from Governor Dewitt Clinton which accompanied a bag of wheat that had been "raised by Gordon S. Mumford, Esq., on his farm on the island of New York." While this letter was being read by James Cooper the bag of wheat was brought to the pulpit of the church, and deposited at the foot of it.

Within the Presbyterian burying ground, at the rear of the church, lie the remains of some of the best known of the early settlers. A strange perversity of fate, however, has singled out for the attention of the tourist a tombstone that has no other claim to distinction than a surprising feature of the epitaph. This tallish slab of marble stands not far from the northeast corner of the burying ground. It is decorated at the top with the conventionally chiseled outlines of urn and weeping willow, and bears an inscription in memory of "Mrs. Susannah, the wife of Mr. Peter Ensign, who died July 18, 1825, aged 54 years," and whose praises are sung in some verses that begin with this astonishing comment: