The invention discloses a paraffin section method for fern gametophytes, which comprises the steps of material selection and fixation, washing, coloration and bluing, dehydration and hyalinizing, waxing and embedding, sectioning, patching, dewaxing and mounting, as well as microscopic examination and photographing, wherein improved FAA (formalin, acetic acid and alcohol) stationary liquid is adopted in the fixation, and the stationary liquid consists of formalin, acetic acid and 30% alcohol (formalin:acetic acid:30% alcohol = 1:1:18). The method is adopted, so that the disadvantage of much youngness of the fern gametophytes can be effectively overcome; the fixation can be well performed for cell divisions at all stages; from a paraffin section in a later stage, a plurality of mitotic sections can be observed, so that a whole development process can be reflected detailedly; therefore, the method has high development and application values.