In this study we present projected changes in the Eastern Bering Sea shelf (EBS) biophysical processes in response to climate forcing scenarios from the Coupled Model Intercomparison Phase 6 (CMIP6). These changes are obtained by dynamical downscaling using a Bering Sea regional model. Surface atmospheric and ocean boundary forcing from three Earth System Models (ESMs) in CMIP6, and a low and a high emission scenario of Shared Socioeconomic Pathway (SSP126 and SSP585) of each of the ESMs are considered. Ensemble mean results suggest that, contrary to an anticipated increase in ocean stratification under warming, diminishing ice cover in response to climate forcing and resultant reduced surface freshening weakens EBS stratification in the melt season. Modeled ensemble mean phytoplankton and zooplankton biomass on the EBS exhibits subsurface maxima during the growing season; the amplitude of these maxima decreases with warming, along with a reduction in primary productivity and oxygen concentration over much of the EBS water column. Phenology of both phytoplankton and zooplankton biomass on the EBS shifts earlier, leading to an increase (decrease) in biomass averaged between April–July (August–November), while annually averaged biomass decreases under warming. Projected changes of primary and secondary plankton biomass at the end of the 21st century are not well separated between the SSP126 and SSP585 scenario in light of the large across model spread under each scenario. The projected ensemble mean warming amplitude of the EBS summer bottom temperature is largely unchanged between results forced by the Coupled Model Intercomparison Phase 5 Representative Concentration Pathway 8.5 (CMIP5 RCP8.5) and CMIP6 SSP585 scenarios. Likewise, the reduction rate of annual mean phytoplankton and large zooplankton biomass are comparable between RCP8.5 and SSP585 projections, even though the absolute amplitudes of biomass are sensitive to modeling parameters such as the solar irradiance attenuation curve. Hence, within the Bering Sea dynamical downscaling framework, projected long-term warming trends in EBS bottom temperature and plankton biomass reduction rates are robust responses to climate forcing.