Injibara University, since its establishment, has expanded its academic programs. It started its operation with 22 undergraduate programs under four colleges in 2018. Then, it added two undergraduate programs in 2019 which it takes until the end of 2020. In 2021, it increased its undergraduate programs to 46 and newly opened 13 postgraduate programs. Since 2022, after the University Board approved more programs, there are now 44 Postgraduates Programs including 1 PhD program. These programs are comprised under seven colleges and one school. The following table shows the list of active Postgraduate programs in Injibara University.
List of Postgraduate Programs in Injibara University
| College | Department | No. | Programs |
| Agriculture, Food and Climate Sciences | Animal Science | 1 | MSc in Animal Genetics and Breeding |
| 2 | MSc in Animal Nutrition | ||
| 3 | MSc in Animal Production | ||
| Horticulture | 4 | MSc in Horticulture | |
| Natural Resource Management | 5 | MSc in Integrated Watershed Management | |
| 6 | MSc in Irrigation Engineering and Management | ||
| 7 | MSc in Soil Science | ||
| Plant Science | 8 | MSc in Agronomy | |
| 9 | MSc in Plant Pathology | ||
| Business and Economics | Accounting and Finance | 1 | MSc in Accounting and Finance |
| Management | 2 | Master of Business Administration (MBA) | |
| Education and Behavioral Sciences | Educational Planning and Management | 1 | MA in Educational Planning and Management |
| Psychology | 2 | MA in Counselling Psychology | |
| 3 | MA in Developmental Psychology | ||
| 4 | MA in Educational Psychology | ||
| 5 | PhD in Developmental Psychology | ||
| Special Needs and Inclusive Education | 6 | MA in Special Needs and Inclusive Education | |
| Teacher Education Curriculum Studies | 7 | MA in Curriculum and Instruction | |
| Medicine and Health Sciences | Midwifery | 1 | MSc in Clinical Midwifery |
| 2 | MSc in Maternity and Reproductive Health Nursing | ||
| Nursing | 3 | MSc in Adult Health Nursing | |
| Public Health | 4 | Health Promotion | |
| 5 | MPH in Epidemiology | ||
| 6 | MPH IN GENERAL PUBLIC HEALTH | ||
| 7 | MPH in Public Health Nutrition | ||
| 8 | MPH in Reproductive Health | ||
| Natural and Computational Sciences | Biology | 1 | MSC IN APPLIED MICROBIOLOGY |
| 2 | MSC IN ECOLOGY AND SYSTEMATIC ZOOLOGY | ||
| Chemistry | 3 | MSC IN ANALYTICAL CHEMISTRY | |
| Mathematics | 4 | MSC IN DIFFERENTIAL EQUATIONS | |
| 5 | MSc in Mathematical Modeling | ||
| 6 | MSc in Numerical Analysis | ||
| Physics | 7 | MSC IN ASTROPHYSICS | |
| 8 | MSc in Condensed Matter Physics | ||
| Social Science and Humanities | Civics and Ethical Studies | 1 | MA in Governance and Developmental Studies |
| English Language and Literature | 2 | MA in Applied Linguistics | |
| 3 | MA in General Linguistics | ||
| 4 | MA in Teaching English as a foreign Language (TEFL) | ||
| Ethiopian Languages and Literature-Amharic | 5 | MA IN ETHIOPIAN LITERATURE AND FOLKLORE | |
| Geography and Environmental Studies | 6 | MA IN ENVIRONMENT AND NATURAL RESOURCES MANAGEMENT | |
| 7 | MA in Urban and Regional Development Planning | ||
| History and Heritage Management | 8 | MA IN HISTORY | |
| Journalism and Communications | 9 | MA in Journalism and Communication Studies | |
| Political Science and International Relations | 10 | MA in Political Science | |
| Total = 44 PG Programs (43 Master + 1 Doctoral) | |||