| Summary: | A relevant indicator for the eutrophication status in the Baltic Sea is the Chlorophyll-a concentration (<i>Chl-a</i>). Alas, ocean color remote sensing applications to estimate <i>Chl-a</i> in this brackish basin, characterized by large gradients in salinity and dissolved organic matter, are hampered by its optical complexity and atmospheric correction limits. This study presents <i>Chl-a</i> retrieval improvements for a fully reprocessed multi-sensor time series of remote-sensing reflectances (<i>R<sub>rs</sub></i>) at ~1 km spatial resolution for the Baltic Sea. A new ensemble scheme based on multilayer perceptron neural net (MLP) bio-optical algorithms has been implemented to this end. The study documents that this approach outperforms band-ratio algorithms when compared to in situ datasets, reducing the gross overestimates of <i>Chl-a</i> observed in the literature for this basin. The <i>R<sub>rs</sub></i> and <i>Chl-a</i> time series were then exploited for eutrophication monitoring, providing a quantitative description of spring and summer phytoplankton blooms in the Baltic Sea over 1998–2019. The analysis of the phytoplankton dynamics enabled the identification of the latitudinal variations in the spring bloom phenology across the basin, the early blooming in spring in the last two decades, and the description of the spatiotemporal coverage of summer cyanobacterial blooms in the central and southern Baltic Sea.
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