Hydrogen sulfide (H2S) is a corrosive trace gas present in biogas produced from anaerobic digestion systems that should be removed to reduce engine-generator set maintenance costs. This study was conducted to provide a more complete understanding of two H2S scrubbers in terms of efficiency, operational and maintenance parameters, capital and operational costs, and the effect of scrubber management on sustained H2S reduction potential. For this work, biogas H2S, CO2, O2, and CH4 concentrations were quantified for two existing H2S scrubbing systems (iron-oxide scrubber, and biological oxidation using air injection) located on two rural dairy farms. In the micro-aerated digester, the variability in biogas H2S concentration (average: 1938 ± 65 ppm) correlated with the O2 concentration (average: 0.030 ± 0.004%). For the iron-oxide scrubber, there was no significant difference in the H2S concentrations in the pre-scrubbed (450 ± 42 ppm) and post-scrubbed (430 ± 41 ppm) biogas due to the use of scrap iron and steel wool instead of proprietary iron oxide-based adsorbents often used for biogas desulfurization. Even though the capital and operating costs for the two scrubbing systems were low (<$1500/year), the lack of dedicated operators led to inefficient performance for the two scrubbing systems.