Datasets used for the validation of the biogeochemical component of the Mediterranean Analysis and Forecast center of the EU Copernicus Marine Service for the period 2018-2020. The list of datasets includes: 1) the Delay Mode Satellite chlorophyll from https://data.marine.copernicus.eu/product/OCEANCOLOUR_MED_BGC_L3_NRT_009_141/description after interpolation to the 1/24° horizontal resolution, weekly averages and quality check with internal climatology 2) the BGC-Argo float profiles of nitrate, chlorophyll and oxygen from Coriolis DAC (ftp://ftp.ifremer.fr/ifremer/argo; https://doi.org/10.17882/42182#76230) after an internal quality check procedure which is described in Salon et al., 2019. 3) the climatological profiles for 16 subbasins of nitrate, phosphate, silicate, oxygen, DIC, alkalinity, pCO2 and pH computed from the Emodnet 2018 data collection and additional scientific datasets as described in Salon et al., 2019. Ref.: Salon, S., Cossarini, G., Bolzon, G., Feudale, L., Lazzari, P., Teruzzi, A., Solidoro, C. and Crise, A., 2019. Novel metrics based on Biogeochemical Argo data to improve the model uncertainty evaluation of the CMEMS Mediterranean marine ecosystem forecasts. Ocean Science, 15(4), pp.997-1022.