Coral aggregate concrete (CAC) has been identified as a promising building material for reef engineering construction, yet its practical application remains challenging due to incomplete research on the mechanical behaviors of the CAC beam and column components. In this study, a 3D mesoscale modeling approach considering the heterogeneity of CAC was utilized to investigate the mechanical performance of coral aggregate reinforced concrete columns (CARCCs) under axial and eccentric compression. Through numerical delineation of failure processes and damage mechanisms at the mesoscale, comprehensive parametric analysis integrating both numerical simulations and experimental validations were executed to assess the load-bearing capacity of CARCC. Results indicate that the mesoscale model has significant reliability in simulating the deformation and cracking failure behaviors and analyzing the load-displacement relationships of CARCC under axial and eccentric compression loads. When under axial loads, macroscopic cracks in CARCC primarily develop in an oblique manner, precipitating significant concrete spalling and extensive cracking failure along the longitudinal axis. Under eccentric loads, failure advances from crack initiation at load points to abrupt vertical fractures in stressed zones, manifesting a decrement in the load-bearing capacity with escalating eccentricity. Furthermore, the strength grade and reinforcement ratio exert a profound influence on the load-bearing capacity, with disparate impacts under varied loading conditions. It is concluded that reinforcement strategies tailored to specific loading conditions have significant implications for the design and safety of reinforced concrete structures in reef engineering projects.