The invention discloses a microfluidic-based high-flux crystallization condition screening method. The method comprises the following steps of S1, pouring a mixture of PDMS and a cross-linking agent into a cleaned mold, vacuumizing, heating for curing, stripping the cured PDMS from the mold, pasting the PDMS to a substrate, and heating for curing to obtain a microfluidic chip; S2, uniformly mixinga substance to be crystallized, a solvent and an anti-solvent to output a dispersed phase, pouring a continuous phase and the dispersed phase into a channel of the microfluidic chip, and generating liquid drops containing crystals under several crystallization conditions; S3, collecting the liquid drops containing the crystals; and S4, identifying a crystal morphology, and screening a corresponding crystallization condition according to the crystal morphology. The microfluidic chip can be used as a micro-reactor, and has advantages of high-flux treatment, rapid reaction, low reagent consumption, flexible operation, automation, integration and the like.