Kovarce dates back at least to the late 13th century, when it was the property of the Ludanick family. It was seized by Matthew III Csák during the troubles of the early 14th century. In 1395, it became property of the Apponyi family. It fell to Turkish attacks in 1530, 1599 and 1663. In 1663–1685, a period of Ottoman rule between the fourth Austro-Turkish war and the War of the Holy League, it was part of the Uyvar Province as an administrative unit of the "Nahiye" of Nitra.