This data release contains acoustic Doppler current profiler (ADCP) data collected during 2023 from two uplooking tripods in bays of Lake Ontario in central New York. Data were collected at Irondequoit Bay (USGS station number 431314077315901) and at Sodus Bay (USGS station number 431533076582101). Data are organized by bay in child item datasets containing the raw binary data files from the ADCPs as well as tabulated text files of echo intensity, backscatter, velocity, and ancillary data. Tables were created by processing raw data files in R-language oceanographic package OCE (Kelley and others, 2022) and TRDI WinRiver II (Teledyne RD Instruments, 2007). All aggregation, manual magnetic variation calculations, and post-processing were completed using Python libraries pandas (McKinney, 2010) and NumPy (Harris and others, 2020). Tables were created by processing raw data files in R-language oceanographic package OCE (Kelley and others, 2022) and TRDI WinRiver II (Teledyne RD Instruments, 2007). All aggregation, manual magnetic variation calculations, and post-processing were completed using Python libraries pandas (McKinney, 2010) and NumPy (Harris and others, 2020).