A system for generating an alimentary instruction set identifying an individual prognostic mitigation plan, the system comprising a computing device; a diagnostic engine operating on the computing device, wherein the diagnostic engine is configured to receive information related to a biological extraction of a user, wherein the biological extraction contains an element of user physiological state data; generate a diagnostic output based upon the information related to the biological extraction, and an alimentary instruction set generator module operating on the computing device, wherein the alimentary instruction set is configured to identify an element of user wellness behavior data; generate a nutrition instruction set utilizing the diagnostic output, the element of user wellness behavior data and a first machine-learning process; and customize the ameliorative output to identify a prognostic mitigation plan utilizing the element of user wellness data, and the nutrition instruction set.