The disposal of effluent generated from low-cost sanitation technologies such as the decentralized wastewater treatment system (DEWATS) poses challenges to the environment. Such effluent has been shown to contain high concentrations of essential nutrients necessary for crop production. Integrating agriculture in the planning and design of low cost sanitation technologies could provide safe and sustainable mechanisms for disposing of such effluent by retaining the nutrients for crop production and releasing water into hydrological systems. Existing guidelines (for pure waste materials and water) focus mainly on the potential harmful effects of heavy metals in water and do not consider the potential benefits of using nutrient-rich effluent from low-cost sanitation technologies. In addition, these guidelines do not allow for the soil’s contribution in ameliorating potential pollutants in waste.