The invention discloses a seedling breeding method of syzygium hancei. The seedling breeding method of the syzygium hancei comprises the following steps of obtaining seeds from November of every year to February of a second year, and sowing the seeds and breeding seedlings in a greenhouse from February to March of the second year; carrying out whole-course sun-shading treatment on the greenhouse during a seedling breeding period, enabling the illumination intensity to be 100lux to 300lux, applying a fertilizer once when 3 to 4 true leaves sprout on each seedling, afterwards, applying the fertilizer once week and week about, and after the seeds are sowed for 3 months, and when the heights of the seedlings reach 5cm to 7cm, transplanting the seedlings into nutrient bags; preparing nutrient soil, loading the nutrient soil into the nutrient bags, spraying a disinfector, carrying out atomization treatment after the seedlings are transplanted into the bags, then carrying out the sun-shading treatment, and enabling the illumination intensity to be 100lux to 300lux; after the seedlings are transplanted for one week, applying a urea aqueous solution to the seedlings, applying the urea aqueous solution in a spraying manner once every month, not stopping applying the urea aqueous solution until October of the second year, shading sun until February of a third year, applying a compound fertilizer aqueous solution once every month, transplanting the seedlings out of a nursery for forestation when the average heights of seedling plants are 100cm to 120cm until May of the third year. A scientific seedling breeding technique is adopted for the seedling breeding method of the syzygium hancei; the germination rate and the planting percent of the seeds of the syzygium hancei are obviously improved.