Efforts to constrain the negative environmental impacts of excess nitrogen (N) and phosphorus (P) are costly and challenging, due in part to inconsistent reporting of nutrient sources at temporal and spatial scales relevant for local decision making. To meet this challenge, the U.S. Environmental Protection Agency’s National Nutrient Inventory provides estimates of major agricultural, urban, atmospheric, and natural nutrient fluxes for the contiguous United States at county and HUC12 scales annually from 1987 (from 1950 for agriculture) to 2017. Since the late 1980s, total N emissions and atmospheric N deposition have declined 22% and 15%, respectively, despite increased agricultural emissions. Over the same period, municipal wastewater N and P loads remained largely stable, despite population increases, through wastewater treatment upgrades and the phaseout of phosphorus-containing detergents. Improved agricultural efficiency allowed for dramatic increases in agricultural production and crop harvest since 1987 (∼25% for N and P), with little change in surplus nutrients left on fields. Overall, a combination of innovative technologies and management has stemmed or even decreased major sources of nutrient pollution to the environment over the last several decades, representing an important shift that, if continued, may contribute to improved air, land, and water quality and human health.