A high performance and facile method was developed for analysis of geniposide and baicalin by reversed-phase pressurized capillary electromatography(pCEC).The separation was performed on a reversed-phase EP-100-20/45-3-C18 column(total length 45 cm,effective length 20 cm,diameter 100 μm,ODS packing inside diameter 3 μm) with column temperature of 25 ℃.The mobile phase was composed of 20 mmol/L NaH2PO4-acetonitrile(71∶29), mobile phase overall flow rate was set at 0.035 mL/min,separation voltage was +2.0 kV,and the UV detection wavelength was 240 nm.In an isocratic mode pCEC,the relative standard deviations(RSDs) for peak area were not more than 2.8%,and the recoveries were in the range of 91.9%-101.2%.This method was applied in the detection of Xiongju Shangqing Pian with geniposide content of 2.616 mg/g and baicalin content of 11.220 mg/g.The method showed advantages of good selectivity,high column efficiency and low consumption of sample and reagent,and was successfully applied in the separation and detection of geniposide and baicalin in real sample.