
Massive quantities of manure from food production in Minnesota pollutes drinking water, posing a significant health risk. Livestock facilities in the state generated almost 49 million tons of manure in 2024, a new EWG analysis finds.
It’s a long-running problem that EWG highlighted in a 2020 investigation. Five years after that report, this new analysis finds only a slight downtick in the number of animal facilities, from 23,725 in 2019 to 23,503 in 2024, and a similarly small decrease in the amount of manure they produce. The waste they generate is equivalent to almost 8.5 tons of manure yearly for every Minnesotan.
But cattle production has become more concentrated at the largest facilities, which have increased in number by over 12 percent. Many meat and animal products sold in the U.S. come from livestock raised in animal facilities, which produce hundreds or thousands of hogs, poultry or cattle in concentrated barns or feedlots.
The enormous amounts of manure these facilities generate are often applied to nearby farm fields as a fertilizer, since the nitrogen and phosphorus it contains are nutrients that feed crops. But manure and its components can wash off farm fields, leach through soil into drainage systems that empty into nearby streams, or get into groundwater.
Nitrogen can form in drinking water as nitrate, and consuming this water can increase the risk of birth defects and cancer. Manure runoff can also create potentially toxic algae blooms in recreational waters when nutrients are applied in excess of crops’ uptake capacity. EWG has previously reported on algae toxins in bodies of water throughout Minnesota.
Changes at the federal and state level could help tackle this problem. At the federal level, much less conservation funding should go to structural practices for animal feeding operations, or AFOs. These practices include waste storage facilities and covers for manure pits, which encourage more production and waste.
At the state level, Minnesota could more strictly regulate AFOs to reduce the risk of animal manure polluting water. One option is to regulate facilities that fall below the Environmental Protection Agency’s threshold for Clean Water Act discharge permits.
Risk of nitrogen overload
At the largest livestock facilities, known as concentrated animal feeding operations, or CAFOs, the risk of over-application increases. That’s because there is limited cropland nearby, and transporting the waste elsewhere is often difficult and expensive.
EWG also analyzed which fields near AFOs likely received manure in 2024. Analysis found hot spots – areas most at risk for overapplication of manure.
The analysis found nine counties that are hot spots for nitrogen overload. This happens when nitrogen from manure, combined with nitrogen in fertilizer sold in the county, exceeds crop recommendations by more than 40 percent.
Nitrogen overload can be a particular problem in “vulnerable groundwater areas,” as defined by the Minnesota Pollution Control Agency, or MPCA. In these areas, nitrate applied to farm fields through fertilizer or manure can easily get through soil and pollute groundwater. In 2024, 6,480 animal feeding operations were located within a vulnerable groundwater area. (See Figure 1.)
Figure 1. Minnesota counties and vulnerable groundwater areas at risk of nitrogen overload

Source: EWG, from MPCA vulnerable groundwater area dataset
Water contamination threatens Minnesota’s drinking water, recreational water and public health. Consolidating animal production in large CAFOs intensifies that risk.
Huge amounts of manure
EWG’s analysis finds that Minnesota had 23,503 animal feeding operations in 2024. These facilities house up to 1.03 million dairy cattle, 1.6 million beef cattle, 10.8 million hogs and 58.7 million turkeys and chickens, which together produced over 48.9 million tons of manure that year.
Cattle make up most operations in the state and account for over 64 percent of manure, while swine are 27 percent and poultry 8 percent. (See Figure 2.)
Figure 2. Cattle operations produce most of the manure in Minnesota

Source: EWG, from Manure Characteristics Midwest Plan Service, or MWPS, 18 Section 1, 2004, Second Edition
Stearns, Todd, Goodhue, Fillmore and Winona counties (in order of most to least) had the most animal feeding operations in 2024, representing 25 percent of all facilities in the state. (See Figure 3.)
Most livestock facilities in the state are small, but the large facilities produce a disproportionate amount of manure. We used the EPA’s CAFO definitions for this report. Small facilities have fewer than 300 animal units, medium facilities have between 300 and 999, and large have 1,000 or more animal units.
An “animal unit” is defined as an animal equivalent to 1,000 pounds live weight. For example, a single animal unit would be one beef cattle, 2.5 hogs or 125 chickens. So large facilities, or CAFOs, have at least 1,000 beef cattle, 2,500 hogs or 125,000 chickens.
While 78 percent of facilities were small, they produced just 24 percent of manure. Medium facilities made up only 18 percent of all operations but produced the largest share of manure, at 43 percent. Four percent of facilities were large but generated 33 percent of manure.
Figure 3. Map of Minnesota’s animal feeding operations in 2024 by animal type and county

Source: EWG, from MPCA feedlot dataset
Cattle production is getting more concentrated in the largest facilities in Minnesota. There were 22 more large cattle facilities in 2024 than in 2019 – a 12 percent increase in CAFOs with 1,000 or more animal units. The number of large swine facilities stayed the same, while the number of large poultry facilities decreased slightly.
For both cattle and swine, the average number of animal units per facility also increased in 2024 for the largest facilities – some of the biggest CAFOs are getting even bigger. The average number of animal units per facility increased by 257 between 2019 and 2024 in the case of large cattle facilities. The average went up by 24 animal units per facility for large swine operations.
Regulation falling short
In Minnesota, large animal feeding operations must have either an EPA Clean Water Act National Pollutant Discharge Elimination System permit or a state-based State Disposal System permit to operate.
The permits require these large operations to create and submit to the state a manure management plan showing which farm fields livestock operators plan to apply their manure to each year. Permitted facilities must also follow certain land application restrictions to protect vulnerable groundwater areas.
Management plans aim to prevent multiple facilities from applying manure to the same fields, applying manure above the agronomic rate, or both.
These plans are far from perfect and poorly enforced, which is why manure overapplication is still common near large facilities in many areas of the state. But manure management plans, along with the other regulations that apply to large facilities, do rein in some of the worst potential pollution.
Facilities that house between 300 and just under 1,000 animal units do not need a water pollution permit. Minnesota requires only that they get a construction permit. So these medium-sized facilities are not subject to other rules that could protect water quality and public health, such as those that apply to large CAFOs.
In Minnesota, 983 facilities housed between 750 and 999 animal units – just a few hundred units under the 1,000 level that requires regulation. These facilities still produced a lot of manure, as they are 14 percent of all facilities in the state, but are barely regulated. And among these, there were 374 operations that were between 950 and 999 animal units - just 50 animal units short of the large CAFO designation. So almost 400 facilities are polluting at levels close to the amounts from large facilities, but are not regulated in the same way, though they should be.
Manure application hot spots
EWG simulated which individual fields could safely accept manure, based on their distance from the feedlot and the amount of nitrogen recommended for growing crops. Nitrogen rates were based on MPCA guidelines and University of Minnesota fertilizer recommendations.
In areas with a dense concentration of livestock, almost all crop fields are needed to achieve safe use of manure produced by nearby feedlots. In a few isolated areas, there is too much manure to dispose of within a reasonable distance.
EWG’s simulation likely understates the risk of this overload, because we assumed every field within 5 miles of a cattle or hog feedlot and 25 miles of a poultry feedlot is available to take manure, while in most real situations, manure does not travel that far.
There are nine county hot spots for nitrogen overload, where nitrogen from manure combined with nitrogen in fertilizer sold in the county exceeded crop recommendations by more than 40 percent. (See Table 1.)
Table 1. Counties with nitrogen overload
County | Percent nitrogen recommendation met by fertilizer sold | Percent nitrogen recommendation met by applied manure | Percent nitrogen recommendation met by manure and fertilizer combined |
Cass | 84.1 | 74.5 | 158.7 |
Carlton | 84.1 | 72.1 | 156.2 |
Morrison | 84.1 | 69.9 | 154.0 |
Martin | 89.4 | 61.2 | 150.7 |
Winona | 100.9 | 49.6 | 150.6 |
Hubbard | 84.1 | 61.4 | 145.5 |
Rock | 77.6 | 66.2 | 143.9 |
Clearwater | 126.8 | 15.9 | 142.7 |
Stearns | 84.1 | 57.6 | 141.7 |
Source: EWG, from Manure Characteristics MWPS-18 Section 1 Midwest Plan Service, 2004, Second Edition and MPCA feedlot dataset
Research shows that much of the nitrogen considered lost to the atmosphere during manure storage and application ends up redeposited on the land nearby, adding to the potential overload. The concentration of feedlots leaves little or no room to adapt to year-to-year changes in cropping patterns and fluctuating manure composition. It also increases the risk of overloading fields with phosphorus.
Many counties with nitrogen overload, highlighted in Figure 4 below with black outlines, are within the Central Sands and Southeast regions of Minnesota. These two regions have a high percentage of land with the MPCA vulnerable groundwater area distinction.
Figure 4. Areas in Minnesota with nitrogen overload from manure

Source: EWG, from MPCA feedlot dataset
When manure is applied to meet the nitrogen recommendation for crops, phosphorus is often overapplied. This nutrient imbalance is worse for poultry and cattle manure. Phosphorus overload in Minnesota is common – a problem since phosphorus is a major driver of toxic algae blooms.
Algae blooms in recreational water sources can pose a health hazard for humans and pets, not to mention the ecosystem harm. When applying manure at a nitrogen fertilizer rate, the phosphorous content of the manure often exceeds plant need.
The state’s newly updated permitting regulations will determine when large facilities in vulnerable groundwater areas can apply manure to nearby fields. But out of the 6,480 operations in a vulnerable groundwater area, only 161 are above the 1,000 animal unit threshold.
Almost five times that number (791 facilities) fall into the medium category – with more than 300 animal units but fewer than 1,000 animal units. The rest of the facilities do not have rules about how much manure they can apply to vulnerable fields or when. And 53 of these facilities have slightly fewer than 1,000 animal units. So they produce a lot of manure in vulnerable groundwater areas without being subject to the large CAFO rules.
Reforms to help reduce pollution
Minnesota has long struggled with nitrate in drinking water, especially in the Southeast portion of the state. This region has karst soils that water and contaminants can easily leach through, making groundwater more vulnerable to nitrate contamination. Private wells in the region and in other areas of Minnesota have levels of nitrate in their drinking water that are dangerous for the people who rely on them.
EWG joined the Minnesota Center for Environmental Advocacy in 2023 to petition the EPA to work toward fixing the groundwater nitrate contamination crisis in this region.
Livestock facilities also damage air quality, emitting pollutants like ammonia, hydrogen sulfide and particulate matter. This air pollution can cause respiratory illnesses like asthma and bronchitis in people living nearby. And studies show that people who live within a few miles of an AFO have increased rates of mortality from respiratory and cardiovascular problems.
Food production should not imperil water quality and public health.
Reform of federal conservation programs to reduce how much money goes to structural practices for animal feeding operations would be a good first step. The Department of Agriculture’s Environmental Quality Incentives Program, or EQIP, is one of the largest federal conservation programs. This program requires half of all funding to go to farmers for livestock practices. It sent over $1.3 billion to farmers in 2024.
Reforms could include:
- Exempting states from the requirement that 50 percent of EQIP dollars go toward livestock production.
- Lowering the payment limit from $450,000 to $250,000 to prevent a few large producers from monopolizing EQIP funds.
- Barring the largest CAFOs from receiving funding for upgrading or installing infrastructure equipment.
Additionally, the state of Minnesota should change how it regulates AFOs to reduce the risk of pollution of water with animal manure, adopting these policies:
- Permitted, large facilities should be required to monitor subsurface discharges to see how much nitrate ends up in water. There is currently no way to make sure these operations do not violate Minnesota’s water quality standards.
- Facilities that are under 1,000 animal units but still produce huge amounts of manure, such as those between 750 and 999 animal units, should be required to get a State Disposal System permit.