The Archaeological Museum of Agios Nikolaos is a museum in Agios Nikolaos, Crete, Greece. Established in 1970, the museum contains archaeological finds in chronological order beginning with the Neolithic era, Minoan remains, and ending with Greco-Roman finds.

It consists of eight large rooms and amongst its most famous exhibits is the Goddess of Mirtos, a libation vessel in the form of a female figure discovered at a Bronze Age settlement at Fournos, near Mirtos.

The museum also contains important items of the Daedalic Period which date back to the 7th century BC, notably the head of a clay statue of a woman found near Sitia.