Response surface methodology was applied to optimize the water extraction processing of total flavones from sea-buckthorn leaves. The optimal extraction conditions were pH 11.4, temperature 75.5℃, extraction time 2.0h, and the ratio of material to liquid 1∶35g/mL. Under the optimal conditions, the extraction yield was 1.23%. After being precipitated by phosphoric acid solution, the crude flavonoids were separated by macroporous resins AB-8, DM301, and HPD-100. Macroporous resin AB-8 had the highest adsorption rate under the conditions of sample concentration 1.0mg/mL, pH 6.0, and adsorption time 1.0h. About 3 times of column volumn distilled water were used to wash the unabsorbed samples and different concentrations ethanol solutions (30%, 50%, 70%, 80%, and 90%) were used for desorption. The purity of quercetin were detected by high performance liquid chromatography (HPLC) and the purity of quercetin of 80% and 90% fractions was above 97%.