The invention relates to multigrain pancake biological self-raising flour and a manufacture method and application thereof, wherein the multigrain pancake biological self-raising flour is formed from 22% of biological multigrain yeast powder, 76% of plain flour, and 2% of vitamin C; the biological multigrain yeast powder is made by: preparing fermented multigrain paste from, by weight, 500-550 parts of multigrain compound powder, 155 parts of granulated sugar powder, 25 parts of Streptococcus thermophiles, 25 parts of Lactic acid bacteria, 15 parts of Saccharomyces cerevisiae, 5 parts of sweet distiller's yeast, 5 parts of edible salt, 310-330 parts of water, 20-25 parts of Daqu liquor, and 200 parts of enzyme stock pulp, adding 10% of maltodextrin into the fermented multigrain past as a protectant, and spray-drying; the multigrain compound powder is made by from buckwheat, red rice, coix seed, corn and millet at a mass ratio of 1:1:1:1:1. Whole grains are used as material and ferment carrier, and by using biological fermentation, the made pancake fermenting flour has rich nutrition.