[Objective] The optimal craft of preparing conjugated linoleic acid from corn germ oil by dint of microwave method was studied. [Method] Microwave power, microwave mode of action, the amount of catalyst and solvent were selected for single-factor-experiment. Then, based on the single-factor-experiment, the catalyst and solvent amount, and microwave function time were chosen for orthogonal experiment so as to determine the optimal craft of preparing CLA from corn germ oil. UV absorption spectra and infrared absorption spectrum were used to analyse the structural features of natural corn germ oil and CLA. [Result] The optimal preparation condition was as follow: the catalyst was 0.6 times heavier than oil, solvent was 3 times heavier than oil weight, microwave worked for ten minutes. Under the optimal condition, CLA was 56.3% and conversion rate was 99.47 %. The results indicated that non-conjugated double bonds of linoleic acid can be isomerized and changed into conjugated double bonds under the conditions of microwave irradiation.