Adsorption of phenol from an aqueous solution in batch and continuous flow systems using carbon gels with a microhoneycomb structure (carbon gel microhoneycombs, CMHs) was studied. The obtained monolithic CMHs had fairly straight channels, 25–45 μm in diameter, and the thickness of the walls which form the channels was around 5 μm. The CMHs showed 370 times lower hydraulic resistance when compared with a column packed with particles having the same diffusion path length as it. The obtained CMHs have a hierarchical micro-meso porous structure giving BET surface area in the range of 513–1070 m2·g−1.When used for phenol adsorption from an aqueous solution, the CMHs quickly adsorbed phenol at first, and then, the uptake gradually increased, which indicates that the adsorption mechanism is based on not only simple physisorption. The phenol adsorption capacity increased with the increase in carbonization temperature of the CMH and the decrease in its hydrophilicity. CMHs carbonized at temperatures higher than 1073 K showed the highest phenol adsorption capacity which was around 160 mg·g−1. The CMHs could continuously adsorb phenol from aqueous solutions, and their length of unused bed (LUB) values depended on operation conditions but were in the range of 0.3–0.7 cm. The experimental results indicated that carbon cryogels with a microhoneycomb structure have a high potential to be used for effective separation of phenol.