The agricultural use of soils is limited by their contamination with various compounds and low contents of nutrients. We aimed to study the unique soils of the Yamal Experimental Station to determine their contamination with heavy metals and assess their potential fertility. Established in 1932, the Yamal Experimental Station (Salekhard, Russia) has bred new varieties of vegetable crops in open and protected ground. In August 2021, we made a soil section and 40 pits in a 0–10 cm layer. X-ray fluorescence was used to determine 11 metals and oxides. The qualitative assessment was based on the total soil pollution, soil pollution, and geoaccumulation indexes. Finally, we determined the contents of nutrients. The metals and metal oxides showed regressive-accumulative distribution along the soil profile. The concentrations of all ecotoxicants (except for arsenic) were within the maximum/approximate permissible values. Since arsenic has a high regional background content, its elevated concentrations make the soil suitable for agricultural use if proper quality control is in place. The total soil pollution index classified the level of pollution as “acceptable”. The geoaccumulation index showed the soils as mostly “unpolluted” with metals. The soil pollution index had values below 1, which indicated the absence of pollution. The fallow soils of the Yamal Experimental Station have a high level of potential fertility and are suitable for agricultural reuse according to the soil quality indexes applied. They can also serve as a local geochemical standard that has a long history of agrogenic transformation in cryogenic ecosystems. Taking into account increased concentrations of arsenic, we recommend primary quality control of agricultural products to identify its possible migration in the soil-plant system.