The usability of subfossil Cladocera assemblages in reconstructing long-term changes in lake level was examined by testing the relationship between Cladocera-based planktonic/littoral (P/L) ratio and water-level inference model in a surface-sediment dataset and in a 2000-yr sediment record in Finland. The relationships between measured and inferred water levels and P/L ratios were significant in the dataset, implying that littoral taxa are primarily deposited in shallow littoral areas, while planktonic cladocerans accumulate abundantly mainly in deepwater locations. The 2000-yr water-level reconstructions based on the water-level inference model and P/L ratio corresponded closely with each other and with a previously available midge-inferred water-level reconstruction from the same core, showing a period of lower water level around AD 300–1000 and suggesting that the methods are valid for paleolimnological and -climatological use.