A method for manufacturing membrane electrode assembly of fuel cell includes positioning an ion exchange membrane that is cleaned and trimmed to a predetermined size in advance to a base plate, mounting the base plate to a printing platform, attaching a printing plate to the platform, coating a catalyst solution on the printing plate with a scraper, printing the catalyst solution onto the ion exchange membrane with the scraper, heating the ion exchange with a heating board to a temperature of 70-80 C., and waiting for the ion exchange membrane to return flat to complete the coating of the catalyst solution on the ion exchange membrane. The printing and heating steps are repeated for both anode and cathode of the ion exchange membrane. The ion exchange membrane is further subject to hot pressing and then a piece of carbon cloth is positioned on the catalyst coating to serve as a diffusion layer. This completes the manufacturing of the membrane electrode assembly.