Together with the Spassky Cathedral, the bell tower with an altar in honor of the Three Saints was built between 1537 and 1542 on the lower tier. About a hundred years later, it was dismantled. The modern bell tower, which visitors see today, was erected between 1639 and 1654. Before that, another bell tower stood in its place, built simultaneously with the stone Spassky Cathedral. It was a tent-like structure of the type "octagon on a square". The lower two-tier square, adorned with modest moldings, flat pilasters, and a belt of kokoshniks, housed two cells. The octagon above transitioned into an open ringing tier with arched openings, decorated with keystone archivolts. The patterned cornices of the bell tower and keystone arches echoed the decorative elements of the monastery churches. In the 1720s, the previous tent-like completion was removed, the walls of the ringing tier were raised, and another octagon in the style of "Moscow Baroque" with large wheel clocks was installed on top. By the end of the 18th century, the upper octagon received a shaped roof with a spire. In 1841, a Vologda peasant, Mikhail Gorin, made and installed a new spire, which lasted until the mid-20th century. The bells of the Spaso-Prilutsky Monastery, cast between 1736 and 1738, were melted down in 1935 during industrialization. Almost nothing remains of them, except for the names of some bells, such as "Vestovoy", "Protas", "Bolshoy", and their weights. For example, "Bolshoy" weighed 357 puds 30 pounds, while "Vestovoy" weighed 55 puds.

In 2007, the bell tower received a new belfry, created based on the belfry of the Sophia Cathedral. It includes 14 bells, the largest of which weighs 600 kilograms. In August 2008, the main bell weighing 1640 kilograms, made in Tutayev, Yaroslavl region, was consecrated and raised to the belfry with the funds of benefactors and guardians of the Spaso-Prilutsky Monastery. Its creation took about 9 months and around one million rubles. In 1967-1968, the monastery bell tower was restored by specialists from the Vologda Special Scientific Restoration Workshop under the guidance of architect Gleb Pavlovich Belov. During the restoration, the wall masonry was corrected, plastered, and whitewashed; the completion of the bell tower was restored according to the early 18th-century project and covered with galvanized iron, and an onion dome was installed. The new belfry of the Spaso-Prilutsky Monastery first rang out on June 16, 2007, during the celebration of the Meeting of the miraculous image of St. Dimitry of Prilutsky, when His Holiness Patriarch Alexy II arrived in Vologda.