 Čunovo was first mentioned as a village in 1232 under the name "Chun".In the 16th century, Croats fleeing from the Ottomans in the south settled in the village.Until 1947, Čunovo, along with Jarovce and Rusovce, was part of Hungary and was annexed that year with the two others to Czechoslovakia, to enable construction of the Port of Bratislava.