A method for manufacturing a stator of a waterproof motor includes disposing a first assembly in a mold where the first assembly includes a coil unit wound around an iron core assembly and filling the mold with a thermosetting plastic which forms a housing after curing. The housing envelops the coil unit and the iron core assembly. A recess is formed at one end of the housing. The method further includes disposing a second assembly in the recess of the housing where the second assembly includes a circuit unit and filling the recess of the housing with a waterproof glue which envelops the circuit unit after curing. According to the above, the stator of the waterproof motor is formed.