Microbial fuel cells (MFCs) and microalgae–bacteria consortia represent two renewable and promising technologies of growing interest that enable wastewater treatment while obtaining high-value-added products. This study integrates MFCs and microalgae production systems to treat animal slurry, aiming to remove and recover organic and inorganic components while generating energy and producing biomass. The MFCs effectively eliminated Chemical Oxygen Demand (COD), organic nitrogen, and a portion of the suspended solids, achieving a maximum voltage of 195 mV and a power density of 87.03 mW·m−2. After pre-treatment with MFCs, the slurry was diluted to concentrations of 10%, 50%, and 100% and treated with microalgae–bacteria consortia. The results showed a biomass production of 0.51 g·L−1 and a productivity of 0.04 g·L−1·day−1 in the culture fed with 10% slurry, with significant removal efficiencies: 40.71% for COD, 97.76% for N-NH4+, 39.66% for N-NO2−, 47.37% for N-NO3−, and 94.37% for P-PO4−3. The combination of both technologies allowed for obtaining a properly purified slurry and the recovery of nutrients in the form of bioelectricity and high-value biomass. Increasing the concentration of animal slurry to be treated is essential to optimize and scale both technologies.