The sustainable management of biomass is a key global challenge that demands compliance with fundamental requirements of social and environmental responsibility and economic effectiveness. Strategies for the valorization of waste biomass from agrifood industries must be in line with sustainable technological management and eco-industrial approaches. The efficient bioremoval of the pesticides imazalil and thiabendazole from aqueous effluents using waste biomass from typically Mediterranean agrifood industries (citrus waste, artichoke agrowaste and olive mill residue) revealed that these residues may be transformed into cost-effective biosorbents. Agrifood wastes present irregular surfaces, many different sized pores and active functional groups on their surface, and they are abundant in nature. The surface and adsorptive properties of olive mill residue, artichoke agrowaste and citrus waste were characterized with respect to elemental composition, microstructure, crystallinity, pore size, presence of active functional groups, thermal stability, and point of zero charge. Olive mill residue showed the highest values of surface area (Brunauer–Emmett–Teller method), porosity, crystallinity index, and pH of zero point of charge. Olive mill residue showed the highest efficiency with sorption capacities of 9 mg·g−1 for imazalil and 8.6 mg·g−1 for thiabendazole.