The Master's programs at the Faculty of Science & Technology of Agriculture provide an opportunity for students to specialize in various branches of agricultural science. These programs prepare graduates for entry into the professional workforce, employment in executive and research sectors, and for continuing their education at the doctoral level. The wide range of programs and specializations across the different academic departments is as follows:
| Major | Specialization | Organizer | Type | |
| 1 | Agricultural Management | Agricultural Management | Department of Water Science and Engineering | On-Campus |
| 2 | Agricultural Mechanization Engineering | Analysis & Management of Agricultural Systems | Department of Biosystems Engineering | On-Campus |
| 3 | Agricultural Mechanization Engineering | Recycling & Waste Management | Department of Biosystems Engineering | On-Campus |
| 4 | Agrotechnology | Crop Ecology | Department of Plant Production and Genetics Engineering | On-Campus |
| 5 | Agrotechnology | Crop Physiology | Department of Plant Production and Genetics Engineering | On-Campus |
| 6 | Agrotechnology | Weed Science | Department of Plant Production and Genetics Engineering | On-Campus |
| 7 | Agrotechnology | Seed Science and Technology | Department of Plant Production and Genetics Engineering | On-Campus |
| 8 | Animal Science | Poultry Nutrition | Department of Animal Science and Engineering | On-Campus |
| 9 | Animal Science | Animal and Poultry Genetics and Breeding | Department of Animal Science and Engineering | On-Campus |
| 10 | Animal Science | Animal Nutrition | Department of Animal Science and Engineering | On-Campus |
| 11 | Animal Science and Engineering | Animal Nutrition | Department of Animal Science and Engineering | On-Campus |
| 12 | Biosystems Mechanical Engineering | Post-Harvest Technology | Department of Biosystems Engineering | On-Campus |
| 13 | Biosystems Mechanical Engineering | Design & Manufacturing | Department of Biosystems Engineering | On-Campus |
| 14 | Biosystems Mechanical Engineering | Renewable Energies | Department of Biosystems Engineering | On-Campus |
| 15 | Fertility Management and Soil Biotechnology | Soil Biology and Biotechnology | Department of Soil Science & Engineering | On-Campus |
| 16 | Fertility Management and Soil Biotechnology | Soil Chemistry, Fertility, and Plant Nutrition | Department of Soil Science & Engineering | On-Campus |
| 17 | Food Science and Technology | Food Technology | Department of Food Science and Technology | On-Campus |
| 18 | Horticultural Science and Engineering | Greenhouse Crop Production | Department of Horticultural Science and Engineering | On-Campus |
| 19 | Horticultural Science and Engineering | Medicinal Plants | Department of Horticultural Science and Engineering | On-Campus |
| 20 | Horticultural Science and Engineering | Ornamental Plants | Department of Horticultural Science and Engineering | On-Campus |
| 21 | Horticultural Science and Engineering | Vegetable Crops | Department of Horticultural Science and Engineering | On-Campus |
| 22 | Horticultural Science and Engineering | Fruit Trees | Department of Horticultural Science and Engineering | On-Campus |
| 23 | Management of Soil Resources | Soil Resources and Land Evaluation | Department of Soil Science & Engineering | On-Campus |
| 24 | Management of Soil Resources | Soil Physics and Conservation | Department of Soil Science & Engineering | On-Campus |
| 25 | Plant Production and Genetics Engineering | Agricultural Biotechnology | Department of Plant Production and Genetics Engineering | On-Campus |
| 26 | Plant Production and Genetics Engineering | Genetics and Plant Breeding | Department of Plant Production and Genetics Engineering | On-Campus |
| 27 | Plant Protection | Entomology | Department of Plant Protection | On-Campus |
| 28 | Plant Protection | Plant Pathology | Department of Plant Protection | On-Campus |
| 29 | Rural Development | Rural Development | Department of Water Science and Engineering | On-Campus |
| 30 | Water Science and Engineering | Irrigation and Drainage | Department of Water Science and Engineering | On-Campus |
| 31 | Water Science and Engineering | Water Resources Engineering | Department of Water Science and Engineering | On-Campus |