A system and method for anti-nutritional removal includes generating a feed stock from a plant-based protein source, the plant-based protein source having anti-nutritionals disposed therein. The system and method includes generating an ethanol slurry by combining the feed stock with an ethanol wash containing a first volume of ethanol and processing the ethanol slurry through an extractor to generate an ethanol matrix and a feed stock mass. The method and system further includes providing the feed stock mass to a desolventizer and generating a desolventized feed stock mass therefrom. Therein, the method and system includes drying the desolventized feed stock mass to generate a clean feed stock with at least a portion of the anti-nutritionals removed therefrom. In one embodiment, the feed stock may be fava beans with the removal of vicine and covicine as anti-nutritionals.