A three-dimensional, variable-density solute-transport model (SUTRA) was developed to evaluate the effects of nine selected withdrawal/recharge scenarios on salinity of groundwater and discharge of freshwater to the nearshore environment of central Molokaʻi, Hawaiʻi. The model was constructed using water-level and salinity data available for the period from 1940 to 2012. Groundwater recharge for the model was estimated using a daily water budget for the period of interest. Inflow of groundwater at the model boundaries was estimated from an islandwide model based on a sharp-interface approach (SHARP). The island-wide model is included as part of this data release. The data release also includes the SUTRA and SHARP source codes and executable files used to run the simulations. The SHARP code was modified for input/output related to computing the boundary flows and the SUTRA code was modified to include simplified unsaturated zone properties in the subroutine UNSAT. This USGS data release contains all of the input and output files for the simulations described in the associated model documentation report (https://doi.org/10.3133/sir20195150).