The invention relates to a traditional Chinese medicine extraction composition, in particular to a traditional Chinese medicine composition for clearing intestines and stomach and protecting stomach and a preparation method of the composition. The composition comprises a first component and a second component, wherein the first component comprises 8-12 parts of fructus crataegi, 10-12 parts of fructus mume, 9-12 parts of herba ecliptae, 9-12 parts of fructus ligustri lucidi, 6-9 parts of radix angelicae sinensis, 9-12 parts of rhizoma polygoni cuspidati, 6-9 parts of cortex magnoliae officinalis, 5-7 parts of fructus aurantii immaturus, 10-12 parts of radix bupleuri, 5-7 parts of rhizoma pinelliae, 10-12 parts of rhizoma atractylodis, 5-8 parts of rhizoma cyperi, 3-6 parts of radix scutellariae, 9-11 parts of semen myristicae, 5-7 parts of fructus evodiae, 10-12 parts of concha arcae, 7-9 parts of rhizoma corydalis and 5-9 parts of radix salviae milti orrhizae, 6-8 parts of fructus citri sarcodactylis and 5-7 parts of endothelium corneum gigeriae galli. The traditional Chinese medicine composition has no toxic and side effects, is mild, safe and reliable, can be taken for a long time, and plays a preventive effect; the composition can effectively remove gastrointestinal toxins and protect intestinal mucosa at the same time, and is suitable for multiple stomach discomfort causedby acute and chronic gastritis, enteritis, gastric ulcer, gastric hemorrhage and other diseases, such as gastric acid, gastric distention, stomachache, heartburn, nausea, vomiting, dyspepsia and thelike, constipation, defecation malodor and the like; and the composition has a remarkable curative effect on multiple types of gastrointestinal diseases.