This paper describes proficiency evaluations of three Japanese Input Methods using a portable eye-controlled communication device for users with disabilities such as Cerebral Palsy or ALS (Amyotrophic Lateral Sclerosis). We proposed three Japanese Input Methods and implemented them. Our quantitative evaluation, subjective evaluation by questionnaire and physiologic evaluation with NIRS (Near Infra-Red Spectroscopic) show the effectiveness of the “Roman letters” input method and the “modified beeper” input method. The results of proficiency evaluation show the effectiveness of the “Roman letters” input method.