In this research, for the first time, we present the evaluation of a semi-continuous pit manure recharge system on the mitigation of ammonia (NH3) and hydrogen sulfide (H2S) emissions from a swine finisher barn. The pit recharge system is practiced on many swine farms in the Republic of Korea, primarily for improving air quality in the barn. It consists of an integrated waste management system where the fraction of stored manure is pumped out (10× of the daily production of manure, 3× a day); solids are separated and composted, while the aerobically treated liquid fraction is then returned to the pit. We compared emissions from two 240-pig rooms, one equipped with a pit recharge system, and the other operating a conventional slurry pit under the slatted floor. Mean reduction of NH3 and H2S emissions were 49 ± 6% and 82 ± 7%, respectively, over 14 days of measurements. The removal efficiency of H2S was higher than NH3, likely because the pH of aerobically treated liquid manure remained slightly above 8. More work is warranted to assess the N balance in this system and the emissions of odor and greenhouse gasses (GHGs). It is also expected that it will be possible to control the NH3 and H2S removal rates by controlling the nitrification level of the liquid manure in the aerobic treatment system.