ISI Yogyakarta has three faculties, which offers eight-semester study programs leading to Undergraduate Bachelor Degree in Arts. Additionally, the Graduate programs of Master Degrees in Research and Artworks Creativity have been established since the year of 2000, while Doctor of Philosophy (Ph.D.) and Doctor of Creative Arts programs have been established since the year of 2006. The faculties are as follow:
- Faculty of Fine Arts
- Faculty of Performance Arts
- Faculty of Recording Media Arts
- Graduate Programs