The risk of nitrate contamination became a reality for Fairmont in Minnesota, when water rich in NO3-N exceeded the drinking water standard of 10 mg/L. This was unexpected because this city draws its municipal water from a chain of lakes that are fed primarily by shallow groundwater under row-crop land use. Spring soil thaw drives cold water into a subsurface pipe where almost no NO3-N reduction occurs. This paper focuses on NO3-N reduction before the water enters the lakes and no other nitrogen management practices in the watershed. A novel denitrifying bioreactor was constructed behind a sediment forebay, which then flowed into a chamber covered by a greenhouse before entering a woodchip bioreactor. In 2022 and 2023, water depth, dissolved oxygen, and temperature were measured at several locations in the bioreactor, and continuous NO3-N was measured at the entry and exit of the bioreactor. The results showed better performance at a low water depth with lower dissolved oxygen and higher water temperature. The greenhouse raised the inlet temperature in 2022 but did not in 2023. The forebay and the greenhouse may have impeded the denitrification process due to the high dissolved oxygen concentrations in the influent and the stratification of dissolved oxygen caused by algae in the bioreactor.