The interior is of particular historical interest, in view of the many frescos dating back to the 13th and 16th centuries and Fanefjord Church is considered the most famous attraction on Møn.

A few hundred meters to the south of the church there is a particularly long barrow, Grønsalen, the supposed burial ground of queen Fane and her husband king Grøn Jæger who according to local folklore, lived some 4,000 years ago.

After frescos had been discovered at the end of the 19th century in Møn's Elmelunde Church, those in Fanefjord were painstakingly uncovered from 1932 to 1934 under the guidance of the National Museum.

The images themselves appear to have been inspired partly from block-prints from a Dutch or German Biblia Pauperum, a book containing some 40 pages of drawings depicting stories from the Bible.

[7] The church contains a number of other interesting features: The choir, which was renovated in the 17th century in a different, but compatible style, consists of an impressive altarpiece, the original candlesticks and a new altar.

A new organ built by Frobenius & Sønner with 10 stops, two keyboards and a pedalboard, was installed in 1998. Notable people buried in the graveyard include: