In the present paper, we examine the influence of micrite types, autochthonous or allochthonous, on the dolomitization processes. The recrystallized and dolomitized Carnian samples from Rifugio Vallandro and Alpe di Specie erratic boulders (South Tyrol, Italy) offer a unique example for studying the relationship between microbialites and dolomitization processes. The comparison between the carbonates of the well-preserved erratic boulders of Alpe di Specie and the isochronous, recrystallized, and dolomitized, samples of Rifugio Vallandro, allows for hypothesizing the role of microbialites on dolomitization processes. The Rifugio Vallandro samples represent variously dolomitized boundstone (made of corals, sponges, and peloidal crusts) with a fine texture (aphanodolomite) which contain organic matter relics, suggesting microbial-mediated mineralization. Geomicrobiological characterization of the microbialites from Alpe di Specie indicates that they formed through microbial metabolic activity of sulfate-reducing bacteria, which thrive on organic matter accumulated in the suboxic to anoxic interspaces of the skeletal framework. Similar processes can be hypothesized for the microbialite precursor of Rifugio Vallandro. Extracellular polymeric substance (EPS) and other organic compounds trapped inside the fine crystal matrix can have a role in the dolomitization processes of the microbialites. High pH and high alkalinity, derived from the degradation of organic matter, may be critical in promoting the dolomitization of microbialites because the high pH increases the concentration and activity of the dissolved CO32−, thereby increasing the dolomite supersaturation and reaction rates. This process produces very fine dolomite (aphanodolomite) that replaces the original organic-rich micrite, while the fine crystalline dolomite forming larger euhedral crystals seems to derive from the allochthonous micrite due to the presence of a large amount of siliciclastics and the absence of organic remains.