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The ocean plays a major role in controlling atmospheric carbon at decadal to millennial timescales, with benthic carbon representing the only geologic‐scale storage of oceanic carbon. Despite its importance, detailed benthic ocean observations are limited and representation of the benthic carbon cycle in ocean and Earth system models (ESMs) is mostly empirical with little prognostic capacity, which hinders our ability to properly understand the long‐term evolution of the carbon cycle and climate change‐related feedbacks. The Benthic Ecosystem and Carbon Synthesis (BECS) working group, with the support of the US Ocean Carbon & Biogeochemistry Program (OCB), identified key challenges limiting our understanding of benthic systems, opportunities to act on these challenges, and pathways to increase the representation of these systems in global modeling and observational efforts. We propose a set of priorities to advance mechanistic understanding and better quantify the importance of the benthos: (a) implementing a model intercomparison exercise with existing benthic models to support future model development, (b) data synthesis to inform both model parameterizations and future observations, (c) increased deployment of platforms and technologies in support of in situ benthic monitoring (e.g., from benchtop to field mesocosm), and (d) global coordination of a benthic observing program (“GEOSed”) to fill large regional data gaps and evaluate the mechanistic understanding of benthic processes acquired throughout the previous steps. Addressing these priorities will help inform solutions to both global and regional resource management and climate adaptation strategies.