Assessing nesting metrics in large waterbird breeding rookeries is challenging due to their size and accessibility. Drones offer a promising solution, but their comparability with ground surveys remains debated. In our study, we directly compared ground and drone data collected simultaneously over the same breeding areas. Drones excel in accessing remote terrain, enhancing coverage, mapping colony extent and reducing sampling bias. However, flying at the low altitudes required to capture young chicks in nests within densely populated rookeries poses challenges, often requiring observer presence and diminishing the distance advantage. Drones enable rapid data collection and facilitate accurate ibis chick counts, particularly at the “runner” stage when chicks are very mobile, and our surveys found significant differences in the counts between drone and ground surveys at this nesting stage. Ground surveys, on the other hand, provide valuable contextual observations, including water variables and sensory cues concerning the health of the colony. Both methods offer unique insights, with drones providing high-resolution aerial data and ground surveys complementing with human observations. Integrating both methods is ideal for comprehensive waterbird monitoring and conservation.