The invention discloses a traditional Chinese medicine composition for treating hypomenorrhea and infertility caused by thin endometrium and a preparation method thereof. The traditional Chinese medicine composition is prepared from 1-6 parts of roasted tortoise plastron, 1-6 parts of roasted turtle shell, 16 parts of prepared rehmannia root, 1-9 parts of pulp of dogwood fruit, 1-6 parts of parched white peony root, 0.5-3 part of fried angelica sinensis, 1-9 parts of ligusticum wallichii, 1.5-9 parts of spina date seed, 1-9 parts of roasted rhizoma anemarrhenae, 1-6 parts of poria cocos in Yunnan, 1-6 parts of fried codonopsis pilosula and 1-12 parts of roasted rhizoma atractylodis macrocephalae. A formula is screened through a large number of clinical researches, and a research result shows that the traditional Chinese medicine composition can effectively improve the syndromes of kidney yin deficiency type hypomenorrhea and infertility, increase the menorrhea, promote endometrial hyperplasia and follicle development in the later menstruation period, improve the levels of serum E2 and LH in the ovulation period, improve the levels of E2 and P in the middle luteal stage, increase the thickness of the endometrium in the middle-stage luteum, increase the volume of the endometrium and enrich blood perfusion under the endometrium in the middle-stage luteum, so that the endometrium receptivity is improved, embryo implantation is promoted to help pregnancy, and the traditional Chinese medicine composition is free of toxic and side effects and safe and reliable in medication.