The invention relates to a method and a mobile device for producing biological medicinal fertilizer through aerobic fermentation, and particularly relates to a method and a mobile device for producing biological medicinal fertilizer through aerobic fermentation of excrements of livestock at high temperature, belonging to the technical field of biofertilizer and biopesticide. A system comprises the mobile device, a fermentation tank, a stirring, overturning and throwing device, an aeration device, a feeding and discharging device, a circulating water pipeline, a screening device, a drying device, a pelletizing device, and a measuring and packing device; a fermented complex microbial inoculant is prepared by thermophilic bacillus, thermophilic fat bacillus, thermophilic clostridium, methyl trophism bacillus, and anaerobic bacillus according to a mass ratio of (2-3):(1-1.5):(1-1.5):(2-2.5):(1-1.5); after the materials are dried and smashed, 1-8% of chitosan oligosaccharide is added, or 0.1-0.5% of substance with microorganism bacillus subtilis and bacillus amyloliquefaciens in the proportion of 3:1 is added, or 0.1-0.2% of soluble salt of microelements like Cu, Zn, Fe, B, Mn and Mo is added, so that organic combination of the biofertilizer and biopesticide is realized.