We present optimization formulations for multi-product supply chain networks. The formulations use a general graph representation that captures dependencies between an arbitrary number of products, technologies, and transportation paths. We discuss how to use the framework to compute compromise solutions that resolve geographical and stakeholder conflicts. We present case studies in which we seek to design supply chains to collect and process organic waste from a large number of farms in the State of Wisconsin to mitigate point phosphorus and methane emissions. (C) 2017 Elsevier Ltd. All rights reserved.