A process for producing biofuels from biomass is provided by removing sulfur compounds and nitrogen compounds from the biomass by contacting the biomass with a digestive solvent to form a pretreated biomass containing soluble carbohydrates and having less than 35% of the sulfur content and less than 35% of the nitrogen content, based on untreated biomass on a dry mass basis, prior to carrying out aqueous phase reforming and further processing to form a liquid fuel.