A waterborne self-emulsification epoxy curing agent modified by the short fluorocarbon chain was synthesized successfully based on epoxy resin(E-44), isophorone diisocyanate (IPDI), 1, 1, 3, 3,3- hexafluoro-2-propanol(HFIP),and diethylenetriamine (DETA) as main raw materials, and it was emulsified further with fluorine-containing epoxy resin to form an environment-friendly hydrophobic waterborne epoxy resin. contact angle testing, FTIR, AFM, TGA, DMA and other analytical methods were used to characterize and study the structure of the resin, surface properties, thermal properties and mechanical properties of the cured film results show that the heat resistance and hydrophobicity of the fluorine-containing epoxy were improved to some extent compared with the fluorine-free system, and lower fluorine content 2.4% (the mass fraction of fluorine in epoxy cured substance) can reach the hydrophobic effect. With the fluorine content increases to 5.1%, the hardness of epoxy resin cured flim increased from 3H to the5H, but the adhesion decreases by 1 level, and the glass transition temperature increased from 68℃ to 80℃.The surface roughness is also improved, so that the water contact angle is further increased to an optimum 98°. The cured film obtained the best thermal stability, and the maximum thermal decomposition temperature was 373.1 °C.