Stevia rebaudiana (Bertoni) is a promising medicinal and aromatic plant for Mediterranean agroecosystems given its positive agronomic attributes and interesting quality features. It has both food and pharmaceutical applications, since its leaves contain sweet-tasting steviol glycosides (SVglys) and bioactive compounds, such as phenolics, flavonoids, and vitamins. We evaluated the agronomic and qualitative performances of nine stevia genotypes cultivated, in open field conditions, for two consecutive years under the Mediterranean climate of central Italy. Growth, biomass production, and accumulation of bioactive compounds (SVglys, polyphenols, and their related antioxidant activities) were evaluated, considering the effect of harvest time and crop age (first and second year of cultivation). The results showed high variability among genotypes in terms of both morpho-productive and phytochemical characteristics. In general, greater leaf dry yields, polyphenol accumulation, and antioxidant activities were found in the second year of cultivation, harvesting the plants in full vegetative growth. On the other hand, total SVglys leaf content reached the highest values in the first year when plants were at the beginning of the reproductive phase. On the other hand, although the SVglys profile (Rubusoside, Dulcoside A, Stevioside, Rebaudioside A, C, D, E, and M) remained stable over harvest times, it differed significantly depending on the crop age and genotype. Our findings provide useful information on the influence of crop age and harvest time in defining quanti-qualitative traits in stevia, with PL, SL, BR5, and SW30 being the best performing genotypes and thus suitable for breeding programs. Our study highlighted that stevia, in the tested environment, represents a promising semi-perennial crop which offers new solutions in terms of cropping system diversification and marketing opportunities.