Greenhouse gas emissions from meat and dairy production are often highly uncertain; these emissions are typically estimated using inventory-based, ‘bottom-up’ models, which contain uncertainties that are difficult to quantify. Modeled emissions estimates can be corroborated using atmospheric measurements—taken above and downwind of animal production regions—to produce ‘top-down’ emissions estimates. Top-down and bottom-up estimates of animal methane show good agreement when considering global emissions. However, in the US, where animal production is predominantly highly intensified with confined feeding operations, animal methane emissions may be 39%–90% higher than bottom-up models predict (expressed as mean differences across studies). Animal emissions may grow in the future as meat and dairy demand increases in developing countries. We examine East and Southeast Asia as a test case, where emissions from increased meat and dairy production are expected to be offset by improved efficiency from intensive methods. We adjust the share of direct emissions projected to come from intensive systems by the intensities derived from US top-down estimates. We find that region-wide emissions from meat and milk production could reach 1.52 (1.41–1.62) GtCO₂eq by 2050, an amount 21% (13%–29%) higher than previously predicted. Therefore, intensification may not be as effective in mitigating emissions in developing countries as is commonly assumed.