The invention belongs to the technical field of oral cavity root canal filling materials, and discloses a mineral filling material as well as a preparation method and application thereof. The filling material is obtained by compatibility of zinc oxide, iodoform, minium, borneol and natural traditional Chinese medicine mineral raw materials, is used for oral root canal therapy filling, improves disinfection, sterilization and convergence effects of the filling material, improves physical properties of the filling material, improves strength, reduces contractility, and is simple and easy to use. According to the oral root canal paste, the medicine effect is improved, the physical property is improved, the shrinkage rate is greatly reduced, a substance similar to gutta-percha is formed, the requirement of an ideal oral root canal treatment paste is perfectly met, and the oral root canal treatment effect is greatly improved. The traditional Chinese medicine has the treatment effects of sterilizing, removing slough, promoting granulation, promoting blood circulation to arrest pain, astringing, diminishing inflammation and treating pain. The shrinkage performance of the filling material after solidification is greatly improved, dead space is eliminated, and the success rate of root canal therapy is improved.