Vaccines contain numerous animal and plant proteins (soy, peanut, sesame, maize, wheat, etc.). Vaccine excipients are derived from plant or animal sources. The mechanism of animal protein induced autoimmunity was previously described. Following a report associating maternal gluten intake to type 1 diabetes in the offspring, plant proteins were investigated. The Pandemrix vaccine induced narcolepsy due to molecular mimicry between a H1N1 nucleoprotein peptide in the vaccine and the human hypocretin receptor 2. The BLASTP match score for this peptide was used as a baseline. BLASTP showed strong sequence alignment between gliadin, a wheat protein, and the human ionotropic N-methyl-D-aspartate receptor (NMDAR). Analyzing further, strong sequence alignment was found between soy, peanut, sesame, maize, wheat and human glutamate receptors (GR), both ionotropic and metabotropic. There are reports of boosted wheat allergy and de novo synthesis of NMDAR antibodies following immunization. Once immunized with plant derived antigens, antibody levels will be increased by dietary exposure to these antigens. GR are expressed in the brain, heart, pancreas and the T cells of the immune system. Vaccine induced GR antibodies (GRA) disrupt or destroy GR thus precipitating numerous disorders. This explains the epidemic of food intolerances and food associated immune mediated disorders. Intestinal barrier disruption has been proposed as a cause for food associated autoimmune disorders. However, intestinal barrier disruption may itself be the result of GRA. GRA also disrupt the blood-brain barrier. This allows other anti-brain antibodies access to their targets. Vaccine-induced GRA can therefore explain a wide variety of disorders including autism, type 1 diabetes, attention deficit hyperactivity, epilepsy, schizophrenia, autoimmune encephalitis, Huntington’s, Parkinson’s, dementia, cancer and allergies. The ultimate solution is to immediately remove all non-target proteins from all vaccines.