The earliest church at Skirö may have been a wooden stave church, later replaced during the early 1200s by a stone church built in Romanesque style, with nave, chancel and apse — comparable to surviving medieval churches of the Njudung district such as Myresjö and Lannaskede old churches. That medieval church stood by the shore of Skirösjön close to the old rectory; its foundation walls survive, and a bell tower housing the old church's smaller bell was later erected on the former site.
By the early 1800s the old church was considered too small and in poor repair. Following a bishop's visitation in 1803, the decision was taken to build anew, though disagreements over funding and the choice of site delayed matters for some three decades. In 1831 it was agreed the new church would be built on the hill above the lake, and construction began in 1835. Skirö nya kyrka was completed in 1837 to designs by the architect Jacob Wilhelm Gerss and was consecrated that September by Bishop Esaias Tegnér.
The church is a single-nave hall church in Neoclassical style, with a semicircular chancel, large round-arched windows and a barrel vault. A sacristy projects from the centre of the nave's east side, while the tower to the north carries an open lantern and clock. Among the furnishings is a wooden crucifix dating from the early 1200s, evidently retained from the medieval church, along with box pews from the time of the new building's construction — some fitted as reversible pews, allowing occupants to face either the altar or the pulpit. Fragments of an 18th-century gallery screen decorated with scenes from the life of Christ also survive.
The church has had more than one altarpiece: a painting of the Transfiguration by Johannes Magnusson from 1840, and a later 1927 work depicting Christ in prayer by Elisabeth Hagstrand, which for a time replaced it before both were rearranged during a mid-20th-century restoration. Skirö also has two pipe organs, including a mechanical gallery organ built in 1857 by the local farmer, church painter and organ builder Johannes Magnusson, whose façade was designed by Johan Adolf Hawerman.