Updated project metadata. We performed proteomic analysis of extracellular vesicles (EVs) and whole cell lysates (WCL) isolated from the same liquid culture. This was implemented for two different C. albicans strains, ATCC90028 (n = 3) and ATCC10231 (n = 3). This data set is the first label-free quantitative comparative study of the proteins in C. albicans EVs and their parent planktonic (yeast-form) cells. We identified proteins enriched in EVs versus WCL by comparing their LFQ intensities across all samples. After linking these results with EV enrichment data from other strains, we proposed a suite of putative EV marker proteins which were useful for multiple C. albicans strains and morphologies.