AbstractFjords are representative marine ecosystems that play an important role in regulating coastal carbon cycling. As fingerprints of the dissolved organic matter (DOM) pool, fluorescent DOM (FDOM) is widely used to study the ocean carbon cycle. Here, we report on 1‐year of weekly observations of FDOM (from May 2018 to May 2019) in the Bedford Basin, a well‐studied northwestern Atlantic fjord. Results showed that differences in FDOM indices (biological index, fluorescence index, and humification indices) between the euphotic and aphotic layers changed during the investigation period, suggesting that classical definitions of these indices may not apply consistently. Spearman rank correlations showed that the surface FDOM was affected by physical and biological factors, while water mass renewal was the major control for the deeper layer. Humic‐like FDOM (FDOMH) changed following the Atlantic deep‐water intrusion, indicating that FDOMH may be used to trace water mass movements in this region. FDOMH shows a significantly positive linear correlation with apparent oxygen utilization (AOU). Their slopes were higher than those from the open ocean, suggesting that the Bedford Basin is a hotspot of RDOM production. Hence, we proposed a possible carbon sequestration mechanism that fjords play as “RDOM producing hot spots” and that the produced RDOM is then transported to the open ocean via water mass movement and finally stored in the ocean for extended periods of time. The proposed biogeochemical processes may also occur, more generally, in the global coastal ocean.