The Kyjovka originates in the territory of Staré Hutě in the Chřiby range at an elevation of 518 m (1,699 ft) and flows to Lanžhot, where it enters the Thaya River at an elevation of 152 m (499 ft).

[1] The longest tributaries of the Kyjovka are:[2] The most notable settlement on the river is the town of Kyjov.

The river flows through the municipal territories of Staré Hutě, Stupava, Koryčany, Mouchnice, Nemotice, Snovídky, Kyjov, Svatobořice-Mistřín, Dubňany, Mutěnice, Hodonín, Lužice, Mikulčice, Moravská Nová Ves, Týnec, Tvrdonice, Kostice and Lanžhot.

The largest body of water is the fishpond Jarohněvický rybník with an area of 88.9 ha (220 acres), built directly on the Kyjovka.

[1][3] Common species of fish in the river are Eurasian carp, northern pike and wels catfish.