AIM:Capillary electrophoresis fingerprints(CEFP) and quantitative analysis methods of Radix Scutellariae were established. METHODS:All experiments were carried out in an uncoated fused silica capillary(75 cm?75 ?m i.d.,effective length 63 cm) with a 50 mmol/L sodium borate solution(contained 5% acetonitrile,pH 9.30) under 12 kV while the detection wavelength was set at 280 nm and naproxen was selected as the internal standard. RESULTS:8 co-possessing peaks were selected in the CEFP taking naproxen referential peak.The similarities between each of the ten places and the referential CEFP of Radix Scutellariae were evaluated both the qualitative similarity S_F and the quantitative similariy Q,the apparent quantitative similarity R. CONCLUSION:The method of the CEFP and quantitative analysis are rapid,simple and accurate with a good repeatability and can be used for the quality control of Radix Scutellariae.