Looking for apartments in Waupun, WI? We've got them! Waupun, WI is located in Northeast Wisconsin, in an area comprised of Green Bay, Appleton, Oshkosh, Fond du Lac and surrounding area communities. Waupun, WI is yet another great place to live in Northeastern Wisconsin. StartRenting.com lists apartment rental homes of all shapes and sizes, from efficiencies and lofts—to houses! Listed below are all the current available apartments for rent in Waupun, WI.