Today, three-spined stickleback Gasterosteus aculeatus are the most abundant fish in the White Sea and are close to their historical maximum. Based on observations from 2011–2013, this study reports quantitative and qualitative characteristics of juvenile stickleback diet during periods of active feeding in coastal Zostera seagrass beds. The following planktonic taxa dominated stomach contents: copepods Temora longicornis and Microsetella norvegica, ciliophora Helicostomella subulata. Benthic organisms such as Oligochaetae and Orthocladiinae also played an important role, whereas the literature suggests they were once rare in marine stickleback diets. Consumption patterns depended on fish size, with the most pronounced diet shift taking place as juveniles reached a length of 15 mm, in late August. In larger juveniles the highest correlation between the abundance of food organisms in stomachs and in the sea was observed for Orthocladiinae, suggesting that they are the preferred food. Overall, changes in diet followed changes in the abundance of available food organisms, but food selectivity analysis of planktonic organisms showed that M. norvegica were actively selected by juveniles.