In this work, a total of 72 samples of non-thermally treated commercial table olives were obtained from different markets of the world. Then, prokaryotic diversity in olive biofilms was investigated by metataxonomic analysis. A total of 660 different OTUs were obtained, belonging to Archaea (2.12%) and Bacteria domains (97.88%). From these, 41 OTUs with a proportion of sequences ≥ 0.01% were studied by compositional data analysis. Only two genera were found in all samples,Lactobacillus, which was the predominant bacteria in the biofilm consortium (median 54.99%), andPediococcus(26.09%).Celerinatantimonas,Leuconostoc, Alkalibacterium, Pseudomonas, Marinilactibacillus,Weissella,and the familyEnterobacteriaceaewere also present in at least 80% of samples. Regarding foodborne pathogens, onlyEnterobacteriaceae, Vibrio,andStaphylococcuswere detected in at least 91.66%, 75.00%, and 54.10% of samples, respectively, but their median values were always below 0.15%. Compositional data analysis allowed discriminating between lye treated and natural olive samples, as well as between olives packaged in glass, PET and plastic bags.Leuconostoc, Celerinatantimonas,andAlkalibacteriumwere the bacteria genera with a higher discriminant power among samples. These results expand our knowledge of the bacteria diversity in olive biofilms, providing information about the sanitary and hygienic status of this ready-to-eat fermented vegetable.