AUEB offers a large number of Master's Programs, either at the MSc or the MBA level, mostly in Greek but also in English. To be admitted to a MSc program a candidate has to demonstrate good academic performance in his/her undergraduate studies, good score in the GMAT or GRE score, and maturity to pursue studies at the graduate level. To be admitted to an MBA program, a candidate has to demonstrate a good GMAT score, professional experience of at least 3 years, good academic performance, and leadership potential.

AUEB also offers a very strong Doctoral Program. Students who get admitted to the Doctoral program have to follow one semester or one year of courses, pass the qualifying exams, and then undertake a Doctoral research, submit a Doctoral Thesis and defend it successfully in front of an academic jury.