Until 1795 Vilkovishk was part of the Polish-Lithuanian Kingdom, when the third division of Poland by the three superpowers of those times - Russia, Prussia and Austria - caused Lithuania to become partly Russian and partly Prussian. The part of the state which lay on the left side of the Neman river (Nemunas), including Vilkovishk, was handed over to Prussia who ruled there during the years 1795-1807.
Under Prussian rule the residents were encouraged to build stone or brick houses, instead of wooden ones, for which they were granted a third of the expenses. In those years the importance of Vilkovishk increased, it being a commercial point on the road from Kovno to Koenigsberg.