The invention discloses a preparing method of a preparation for treating joint pain and waist and leg pain. The preparing method includes: placing the extraction clear paste of radix aconiti preparata, radix aconiti kusnezoffii preparata, radix stephaniae tetrandrae, radix sileris, radix dipsaci, radix achyranthis bidentatae, ramulus cinnamomi, radix clematidis and herba geranii at the top of a chromatographic column filled with D101 macroporous resin, performing ethanol elution, collecting the eluent, and concentrating into extract; adding the extract into a sodium alginate solution, and stirring into aqueous phase; heating and evenly mixing liquid paraffin and polysorbate to obtain oil phase; slowly adding the aqueous phase into the oil phase, fast cooling, adding isopropanol, standing,filtering, separating, and subjecting the solid to vacuum drying to obtain microcapsules; adding auxiliaries into the microcapsules, evenly mixing, tableting, and coating to obtain the preparation. The preparing method has the advantages that the stability and effectiveness of the preparation can be increased evidently, stable and gentle medicine release can be achieved, the toxic and side effectsof medicine are lowered evidently, and medicine bioavailability is increased; the preparing method is simple in process, easy to operate, low in production cost, easy to achieve industrial productionand promising in popularization prospect.