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Coastal habitats provide a plethora of ecosystem services, yet they undergo continuous pressure and degradation due to the human-induced climate change. Conservation and management imply continuous monitoring and mapping of their spatial distribution at first. The present study explores the capabilities of the Copernicus Sentinel-2 mission and the contribution of its coastal aerosol band 1 (443 nm) for the mapping of the dominant Mediterranean coastal marine habitats and the bathymetry in three survey sites in the East Mediterranean. The selected sites have shallow to deep habitats and a high variability of oceanographic and seabed morphological conditions. The major findings of our study demonstrate the advantages of the downscaled Sentinel-2 coastal aerosol band 1 for both optically shallow habitat and satellite-derived bathymetry mapping due to its great water penetration. The use of Sentinel-2 band 1 allows detection of Posidonia oceanica seagrass beds down to 32.2 m of depth. Sentinel-2 constellation with its 10-m spatial resolution at most of the spectral bands, 5-day revisit frequency and open data policy can be an important tool to provide crucial missing information on the spatial distribution of coastal habitats and on their bathymetry distribution, especially in data-poor and/or remote areas with large gaps in a retrospective, rapid and non-intrusive manner. As such, it becomes a crucial ally for the conservation and management of coastal habitats globally.