The invention discloses a three-dimensional interplanting method of Chinese yew, conifer and fern. The method includes the steps of soil preparation, transplantation and interplantation, field management and the like. Particularly, the method includes selecting neutral to acidic medium-layer thick soil at an altitude of 1600-2500m, digging seedling beds and applying base fertilizer; and after the Chinese yew is lifted, submerging the seedling root of the Chinese yew into mud mixed with organic fertilizer, and then interplanting the Chinese yew into a three-dimensional growing environment in which the upper-layer vegetation is the conifer and the ground vegetation is the fern, wherein two rows of the Chinese yew are interplanted between every two rows of the conifer, and a row of the fern is interplanted between every two rows of the Chinese yew. The row distance of the Chinese yew is 80-90cm, the inter-plant distance of the Chinese jew is 50-60cm, the row distance between the Chinese row and the conifer is 100-120cm, and the inter-plant distance of the conifer is 160-180cm. After the Chinese yew is transplanted and interplanted, the weeding and earthing-up should be implemented 3-5 times a year, the topdressing should be implemented 2-3 times a year, and the topdressing of the conifer seedlings should be implemented once a year. Experiments prove that according to the three-dimensional interplanting method of the Chinese yew, the conifer and the fern, the survival rate, the growth rate and the setting rate of the Chinese yew are improved greatly, and meanwhile, fast growth, early fruit bearing and capability of large-area popularization and plantation can be obtained.