Manlius is a village in Onondaga County, New York, USA. The population was 4,704 at the 2010 census. The village takes its name from its town. The Village of Manlius is near the south town line of the Town of Manlius and is southeast of the City of Syracuse of which it is a suburb. An area of about 3 blocks in size within the village, running along Seneca Street and parallel Pleasant Street, is listed on the National Register of Historic Places as the Manlius Village Historic District.