What the statewide pattern says
Irrigation recharge and subdivision septic
Montana's higher nitrate is a valley story: flood-irrigation recharge in the Yellowstone valley, septic-driven growth in the Gallatin and Helena valleys — with a natural rock-weathering source in the mix.
The Yellowstone valley is the state's best-measured case. The Montana Bureau of Mines and Geology sampled 119 alluvial wells between Billings and Forsyth: 53 percent ran above 2 mg/L — its threshold for land-use impact — 14 wells exceeded the 10 mg/L federal limit, and the maximum was 209 mg/L. Elevated nitrate sat beneath unsewered Billings subdivisions on former farmland and beside irrigated sugar-beet fields and a feedlot in Treasure County (MBMG, Middle Yellowstone Groundwater Assessment). Flood-irrigation recharge dominates the aquifer, so what is spread on fields reaches the water table.
In the upper Gallatin, the Bureau's side-by-side sampling shows development doing the work: every well on the developed west side of the river ran above 1.5 mg/L, up to 5.84 mg/L, with septic-indicating bromide in most, while the undeveloped east side ran at or below 1.43 mg/L (MBMG, Upper Gallatin hydrogeologic investigation). The Gallatin Local Water Quality District's long record shows valley nitrate slowly rising, though still below the federal limit.
Montana also has a genuine natural nitrate source: rock weathering in southwest Montana's Kootenai Formation releases nitrogen directly to groundwater (Montross and others, 2013), which is why the Bureau reads 2 mg/L, not zero, as the local impact threshold. Lewis and Clark County's mid-band showing has no comparable published study this page can cite; the Helena valley shares the irrigation-and-growth setting, and that is as far as the evidence goes.
The supported source reading is mixed — fertilizer and manure under irrigation in the Yellowstone, septic in the growth valleys, plus a real geogenic contribution — not a certified source at any individual system (Nolan and Hitt, 2006).