Specific examples of ore mineral analysis by micro-PIXE are presented in this paper. For mineralogical usage it is essential to construct a specimen chamber which is designed exclusively for mineral analysis. In most of the analysis of natural minerals, selection of absorbers is essential in order to obtain optimum results. Trace element data reflect the crystallographic characteristics of each mineral and also geologic settings of sampling locality, and can be exploited in research spanning mineral exploration to beneficiation. Micro-PIXE thus serves as a bridge between small-scale mineralogical experiments and understanding of large-scale geological phenomenon on the globe.