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<p>Agricultural emissions, including those from concentrated animal feeding operations (CAFOs) for beef and dairy cattle, make up a large portion of the United States' total greenhouse gas (GHG) emissions. However, many CAFOs reside in areas where methane (CH<span class="inline-formula">₄</span>) from oil and natural gas (ONG) complicates the quantification of CAFO emissions. Traditional approaches to quantify emissions in such regions often relied on inventory subtraction of other known sources. We compare the results of two approaches to attribute the CAFO CH<span class="inline-formula">₄</span> emission rate from the total CH<span class="inline-formula">₄</span> emission rate derived from an aircraft mass balance technique. These methods make use of the mixing ratio data of CH<span class="inline-formula">₄</span>, ethane (C<span class="inline-formula">₂</span>H<span class="inline-formula">₆</span>), and ammonia (NH<span class="inline-formula">₃</span>) that were collected simultaneously in-flight downwind of CAFOs in northeastern Colorado. The first approach, the subtraction method (SM), is similar to inventory subtraction, except the amount to be removed is derived from the observed C<span class="inline-formula">₂</span>H<span class="inline-formula">₆</span> to CH<span class="inline-formula">₄</span> ratio rather than an inventory estimate. The results from this approach showed high uncertainty, primarily due to how error propagates through subtraction. Alternatively, multivariate regression (MVR) can be used to estimate CAFO CH<span class="inline-formula">₄</span> emissions using the NH<span class="inline-formula">₃</span> emission rate and an NH<span class="inline-formula">₃</span> to CH<span class="inline-formula">₄</span> ratio. These results showed significantly less uncertainty. We identified criteria to determine the best attribution method; these criteria can support attribution in other regions. The final emission estimates for the CAFOs presented here were 13 <span class="inline-formula">±</span> 3 g of CH<span class="inline-formula">₄</span> per head per hour and 13 <span class="inline-formula">±</span> 2 g of NH<span class="inline-formula">₃</span> per head per hour. These estimates are higher than the inventory of the US Environmental Protection Agency (EPA) and previous studies highlighting the need for more measurements of CH<span class="inline-formula">₄</span> and NH<span class="inline-formula">₃</span> emission rates.</p>