Aquatic systems are a very important part of the environment, which requires special attention due to the constant deterioration of the quality and quantity of water globally. Aquatic environments in Poland are mostly affected by the mining and smelting industry, which is especially visible in the south of the country, and one of such anthropogenically affected rivers is the Wilga—a small tributary of the Vistula River (the biggest river in Poland). For many years, the catchment area of the Wilga River accommodated a functioning industry that was based on the use of metals (fur, leather processing, foundry and galvanizing plants), as well as the “Solvay” Kraków Soda Works, which have left behind soda waste piles, and currently, along the course of the river, there are ongoing works connected with the construction of the “Łagiewnicka Route”, which required the relocation of a section of the Wilga river bed, among other things. To determine the general condition of the river, selected physico-chemical parameters were analysed in the water (pH, conductivity, anions: Cl−, N-NO3, P-PO4 and SO4 and cations: Al, Ba, Ca, Cd, Co, Cr, Cu, Fe, K, Li, Mg, Mn, Na, Ni, Pb, Sr and Zn), suspended particulate matter and sediment (Al, Ba, Ca, Cd, Co, Cr, Cu, Fe, K, Li, Mg, Mn, Na, Ni, Pb, Sr and Zn). Samples were taken before the relocation of the river bed (2019) and after its relocation (2021). The obtained data were compared with recorded historical data and this revealed that over the years, the condition of the Wilga environment has improved significantly, especially in terms of the contamination of sediments with metals, the concentrations of which fell several ten-fold. This is attributed to the closure of most industrial plants located within the river’s catchment area and to the modernization and legal regulation of the functioning of the remaining plants. An effect of leachates from the soda waste piles on the waters of Wilga has been observed (in the form of higher pH, mineralization and concentration of chlorides), which has however gradually decreased over time. However, no visible impact of road transport on the river’s environment has been observed, or any impact of the construction works or the related relocation of the river bed for that matter. The river should still be classified as polluted, but the level of this pollution has decreased significantly and the qualitative composition of the pollution has also changed.