The invention discloses a biological special fertilizer for tobacco and a preparation method and application of the biological special fertilizer. The biological special fertilizer for tobacco comprises the following raw materials of tobacco stem biomass charcoal, amino acids, humic acid, fulvic acid, a cake fertilizer, bamboo vinegar, potassium sulphate, a composite microbial agent and charcoal energy extraction substances. The biological special fertilizer for tobacco has the functions of loosening soil, retaining water, keeping soil moisture and the like, and enables soil to be loose, and the fertilizer effects are long-lasting; besides, various nutrient elements are added, so that the tobacco can be well maintained healthy in the growth cycle, cell division and nutrient transformationof tobacco plants are intrinsically increased, sugar-alkali proportion balance of tobacco leaves is promoted, promotion of carbon metabolism and self resisting capacity of crops can be realized, growth declining tendency caused by factors of bad climate, soil hardening, undernutrition and the like can be quickly recovered, and promotion of tobacco plant quality is realized.