The efficiency of the hygienic behaviour in bee colonies towards dead brood was assessed in small-cell combs (SMCombs) and in standard-cell combs (STCombs). Each colony had both types of combs in the nest on a permanent basis. Simultaneous keeping of a colony on standard- and small-cell combs is a novel approach to the use of small-cell combs in beekeeping. The number of killed pupae removed within 24 h was the measure of the hygienic behaviour efficiency. Regardless of the year, the brood in the SMCombs was uncapped and removed significantly more efficient (p ≤ 0.01) than in the STCombs (number of non-uncapped cells: in 2020 SMCombs = 3.79, STCombs = 11.62; in 2021 SMCombs = 2.34, STCombs = 5.28 and completely removed cells: in 2020 SMCombs = 87.46, STCombs = 80.04; in 2021 SMCombs = 96.75, STCombs = 92.66). In colonies kept simultaneously on standard- and small-cell combs, the width of the comb cells has a significant effect on the efficiency of removal of dead brood, which is removed more efficient from small-cell combs than from standard-cell combs.