Inagakuen's unique curriculum is adaptable to the particular abilities, interests, and needs of its students. It offers all the subjects normally available in Japanese high schools, and some unusual options. For instance, the general course of study "Japanese" incorporates classes in modern poetry and classical Chinese verse; "Social Studies" includes the history of Japanese culture.

The school provides a range of commercial/business classes (including information processing) and offers a variety of small classes covering special subjects (engine technology, horticulture, poetry, and sculpture, for example).

Inagakuen's somewhat specialized course structure has made it desirable for the school to select some students solely on the basis of interviews and recommendations from junior high schools. About 30% of the students admitted are not required to take the general entrance examination.

Each Inagakuen student selects one course of study and follows it for all three years of high school. Seven broad courses of study are offered:

Humanities (Japanese and Social Studies)

Languages (English, French, German or Chinese)

Mathematics and Science

Art (including Music)

Physical Education

Home Economics

Business

First-year students take required courses and one elective course. Second-year students have five compulsory courses and several electives(there are 181 from which to choose). In the third-year, there are four compulsory courses.