Remarkable museums can be found in Mykonos, the most important ones being:
- The Archaeological Museum, housed in a neoclassical building (1902) and hosting an exhibition of ceramics originating from the mass grave discovered near Rineia, headstones, small artifacts, statuettes made of clay, jewellery and weapons.
- The Folklore Museum, established in 1962 thanks to the actions taken by the Folkloric Collection of Mykonos and the initiatives and donations made by Prof. V. Kyriazopoulos, is housed in 18th-century building and hosts collections of traditional furniture of Mykonos, Post-Byzantine sculptures and ceramics, bronze and iron keys, popular instruments, etc.
- The Aegean maritime Museum, housed in an old, renovated 19th-century Cycladic manor house, hosts a collection of heirlooms associated with the maritime history of Mykonos, such as historical maritime documents, old maps, engravings, navigational instruments, tools and accessories as well as old anchors.
- The Municipal Art Gallery exhibits paintings of Greek and foreign artists.
- The Municipal Library is housed in the renovated manor house of Mavrogenis family, which was built in 1735 in Aghia Kyriaki Square. its exhibits include about 6,000 volumes, a collection of ancient coins and old stamps exposed permanently in the same room.