The invention provides a method for synthesizing 3-fluoro-4-(4-morpholinyl)aniline by using a micro-channel reactor. The micro-channel reactor comprises a preheating module group composed of one or more parallely-connected preheating modules and a reaction module group composed of one or more tandemly-connected reaction modules, wherein the preheating module group is series connection with the reaction module group. The method comprises the following steps: separately preheating difluorobenzene, concentrated nitric acid and concentrated sulfuric acid, then subjecting the preheated difluorobenzene, concentrated nitric acid and concentrated sulfuric acid to a reaction in the reaction module group and carrying out treatment so as to obtain 3,4-difluoronitrobenzene; dissolving 3,4-difluoronitrobenzene in an organic solvent, adding organic base, dissolving morpholine in the organic solvent, carrying out preheating, allowing the obtained solution to enter the reaction module group for a reaction and carrying out treatment so as to obtain 4-(2-fluoro-4-nitrophenyl)morpholine; and dissolving 4-(2-fluoro-4-nitrophenyl)morpholine in ethyl acetate, adding a catalyst, carrying out preheating, allowing the obtained solution and hydrogen to enter the reaction module group for a reaction and carrying out treatment so as to obtain 3-fluoro-4-(4-morpholinyl)aniline. The method has the advantages of low energy consumption, high yield, high product purity, safety, flexibility, etc.