Anaerobic digestion (AD) is a biological-based technology that generates methane-enriched biogas. A microbial electrolysis cell (MEC) uses electricity to initiate bacterial oxidization of organic matter to produce hydrogen. This study determined the effect of energy production and waste treatment when using dairy manure in a combined AD and MEC (AD-MEC) system compared to AD without MEC (AD-only). In the AD-MEC system, a single chamber MEC (150 mL) was placed inside a 10 L digester on day 20 of the digestion process and run for 272 h (11 days) to determine residual treatment and energy capacity with an MEC included. Cumulative H2 and CH4 production in the AD-MEC (2.43 L H2 and 23.6 L CH4) was higher than AD-only (0.00 L H2 and 10.9 L CH4). Hydrogen concentration during the first 24 h of MEC introduction constituted 20% of the produced biogas, after which time the H2 decreased as the CH4 concentration increased from 50% to 63%. The efficiency of electrical energy recovery (ηE) in the MEC was 73% (ηE min.) to 324% (ηE max.), with an average increase of 170% in total energy compared to AD-only. Chemical oxygen demand (COD) removal was higher in the AD-MEC (7.09 kJ/g COD removed) system compared to AD-only (6.19 kJ/g COD removed). This study showed that adding an MEC during the digestion process could increase overall energy production and organic removal from dairy manure.