The study focused on the ultrasonic assisted extraction of gutta-percha and flavonoids from eucommia. The materials were separated by the screening and winnowing to increase the extraction yield of the active ingredients. The effects of the extraction conditions, such as ultrasonic frequency, power, extraction time, and mass concentration, on the yield of gutta-percha were investigated. The results showed that highest yield was obtained at the frequency of 40kH and the yield increased with the increasing power, extraction time, and reduction of the mass concentration. When the wind speed was 4.9m/s in the air compressor, the separation effect of winnowing was similar to that of the 1mm filter. Meanwhile, the contents of gutta-percha and eucommia flavonoids did not decrease after the separation. The gutta-percha content in eucommia powder was lower than that of floc. Moreover, gutta-percha being firstly extracted was better to the utilization of eucommia.