Desert ecosystems are extremely arid and nutrient poor. “Fertile islands” formed by mobile sand dunes and perennial desert plants are crucial for maintaining the structure and function of these ecosystems. However, the impacts of fertile islands created by different plant species at various spatial locations on soil physicochemical properties such as soil nutrients remain unclear. This study focused on the legumes (Astragalus flexus Fisch.), and non-legume (Eremurus inderiensis (M. Bieb.) Regel) plants widely distributed in the Gurbantunggut Desert in northwestern China. We analyzed the soil physicochemical properties of fertile islands formed by these two desert plants at different horizontal distances (0–140 cm) and vertical depths (0–15 cm). In addition, we investigated the relationship between plant functional shape and soil physicochemical properties. This study yielded the following results. (1) The fertile island was observed within the 0–140 cm soil layer of Astragalus flexus and Eremurus inderiensis and gradually weakened with increasing horizontal distance and soil depth. (2) The two plants had different nutrient enrichment rates. Eremurus inderiensis had higher TP and AK enrichment rates than Astragalus flexus. In contrast, Astragalus flexus demonstrated significantly higher enrichment rates for TN, NH4+-N, and NO3−-N, especially NH4+-N, highlighting the ability of legumes to fix and uptake N. (3) The correlation between plant height, crown width, and soil nutrient enrichment rate was more significant for Eremurus inderiensis than for Astragalus flexus. In general, both plants formed the fertile islands that gradually decreased with the increasing distance (both horizontal and vertical). Different plants exhibited varying abilities to enrich soil nutrients and form fertile islands, which presented a clear species effect. Therefore, protecting the diversity of desert plants to form stable fertile islands could be crucial for maintaining the soil fertility in desert ecosystems.