In the Arctic Ocean, variations in the colored dissolved organic matter (CDOM) have important value and significance. This study proposed and evaluated a novel method by combining the Google Earth Engine with a multilayer back-propagation neural network to retrieve CDOM concentration. This model performed well on the testing data and independent validation data (R2 = 0.76, RMSE = 0.37 m−1, MAPD = 35.43 %), and it was applied to Moderate Resolution Imaging Spectroradiometer (MODIS) images. The CDOM distribution in the Arctic Ocean and its main sea areas was first depicted during the ice-free period from 2002 to 2021, with average CDOM concentration in the range of 0.25 and 0.31 m−1. High CDOM concentration appeared in coastal areas affected by rivers on the Siberian side. The CDOM concentration was highly correlated with salinity (r = −0.92) and discharge (r > 0.68), while melting sea ice diluted seawater and CDOM concentration.