This study is the second of a two-part series presenting a novel weather regime-based stochastic weather generator to support bottom-up climate vulnerability assessments of water systems in California. In Part 2 of this series, we present how the model is used to develop an ensemble of climate change scenarios based on both thermodynamic and dynamic signals of climate change. The ensemble includes a suite of 30 climate change scenarios, each consisting of 1000 years of simulated daily climate data (precipitation, maximum temperature, minimum temperature) at a 6 km resolution across the entire state of California. The 30 scenarios represent a range of plausible climate changes to temperature, average precipitation, and precipitation extremes that are reflective of thermodynamic responses of the atmosphere to warming. An additional two scenarios are also created that represent changes in the frequency of weather regimes (e.g., dynamic climate change). Results from these scenarios reveal that when the effects of anthropogenic climate change are combined with plausible realizations of natural climate variability, the severity of extremes in California is amplified significantly. In addition, recent changes in the frequency of large-scale patterns of atmospheric circulation can have impacts of similar magnitude to large (>10%) declines in average precipitation, particularly with respect to drought. The scenarios developed in this work are designed to allow water managers to systematically test the sensitivity of their water system to different combinations of climate change, so that key vulnerabilities can be discovered and then addressed through adaptation planning.