Version 2 of Patch is available. Patch is a simulation program in R for evaluating spatial management strategies to conserve structure and function of ecosystems. Patch has been defined specifically for evaluating strategies to manage bottom fisheries to avoid significant adverse impacts on vulnerable marine ecosystems. This paper includes the revised manual for Patch, which describes its implementation and includes programmer’s notes for updating Patch as needed. The code is available from the CCAMLR Secretariat.