The severe deformation and temperature paths in the stir zone, also called weld nugget, of friction stir welded joints result, at very local levels, in significant microstructural variations, such as major differences in grain size or precipitation. One of the most common features of friction stir welds is the presence of successive material layers, known as onion rings; however, little data is available on the mechanical properties of the different regions of the weld nugget, and particularly within the onion ring bands. Such information becomes very important for the integrity of large size friction stir welded structures. In the present study, a comprehensive characterization of onion rings produced during friction stir welding of a 6082-aluminum alloy was carried out. Advanced techniques such as in-situ SEM nanoindentation, EBSD, and high-resolution EDS were used to validate and compare the characteristics of the different bands in the onion rings. The analyses consisted of quantifying variations in grain size, precipitate composition and distribution, crystallographic orientations, and mechanical properties in each band. Furthermore, the tensile strengths of different regions of the weld nugget were evaluated using shear punch testing and correlated with those for the onion ring region in order to determine the impact of the presence of onion rings on weld nugget mechanical properties. The main difference between the alternate bands in the onion ring was found to be due to the difference in their grain size, misorientation, and precipitate content. It was also observed that the bands originate from the base metal and stir zone successively due to the nature of the stirring process, which pulls BM into SZ. Comparison of the shear punch testing results in different regions of the nugget revealed that, in spite of having local differences in the hardness of alternate bands in the onion ring, the presence of onion rings has no significant impact on the deterioration of the mechanical properties of the weld nugget.