There are five laboratories in the Master of Soil Science Study Program, namely:

1. Laboratory of Soil Physics and Conservation
2. Laboratory of Soil Chemistry and Fertility
3. Laboratory of Soil Biology and Environment
4. Laboratory of Geographic Information Systems
5. Laboratory of Land Resources

Other facilities:

1. Practical Field of Faculty of Agriculture
2. Karst Topography Research Station UPN Veteran Yogyakarta in Pacarejo, Semanu, Gunung Kidul
3. Laboratory of X-Ray Diffraction (XRD)
4. Integrated Research Laboratory of UPN Veteran Yogyakarta
5. Mineral Geotechnology Museum