Bee pollen contains proteins, amino acids, carbohydrates, fats, fatty acids, vitamins, polyphenols, and mineral nutrients that make it useful as a good nutritional supplement in the human diet. It has the richest elemental composition among bee products which is not uniform and consequently varies greatly depending on botanical and geographical origin. In polyfloral and selected monofloral bee pollen samples: sweet chestnut, maple, dandelion, rapeseed, flowering ash, buckwheat, common ivy, and plantain, the concentrations of P, S, Cl, K, Ca, Mn, Fe, Zn, Br, Rb, and Sr were determined. A non‐destructive energy dispersive X‐ray fluorescence spectrometry was used for elemental fingerprinting. The most abundant elements in Slovenian bee pollen are K, P, S, Ca, and Cl followed by Fe, Mn, Zn, Rb, Br, and Sr. Several statistically significant differences in the content of analysed elements were found between studied groups according to the botanical and geographical origin which can be related to soil and plant elemental composition and plant metabolism. The obtained data extend our previous chemical profiling of Slovenian bee pollen and contribute to a more precise evaluation of some essential mineral nutrients in bee pollen to cover recommended dietary allowances in human nutrition. Additionally, this work contributes to a better understanding of mineral nutrient requirements in honey bee nutrition and of the environmental and agricultural impact of this product.