The dataset showed in this manuscript belongs to the investigation of the Southern-Brazilian geopropolis of stingless bees. Stingless bees are native species of insects from tropical areas; they produce honey, pollen and geopropolis that is composed of a mix of vegetal extracts, digestive enzymes, and mostly by soil. Used in folk medicine as antiseptic, antioxidant and antimicrobial agent, the composition is due to bee species, climate changes, local flora, and soil type. Moreover, the complex chemical content gives to the geopropolis a bioactive potential, with scavenging characteristics that is important to avoid free radical damages in the human health. Regarding the importance of exploring new natural matrices sources with bioactive potential, the first approach of chemical characterization of geopropolis is indispensable. Thus, ten samples of Southern-Brazilian geopropolis were analyzed and the bioactive responses obtained were discussed in the accompanying article titled "Southern-Brazilian geopropolis: A potential source of polyphenolic compounds and assessment of mineral composition". Furthermore, the physicochemical analysis of moisture and ash content, the yield of extraction, the reducing activity and free radical scavenging potential of ethanolic extracts, the antimicrobial activity, and the analysis of HPLC-ESI-MS/MS chromatograms are the main data presented in brief. The data can guide scientists in order to know methods and data for these samples.