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Due to population growth and expansion in the agricultural and industrial sectors, the demand for water has increased. However, water availability in some regions has decreased due to climate change trends and variability, necessitating innovative strategies and adaptation in water allocation to avoid conflicts among users in a hydrological system. This paper presents a resilience analysis and a conceptual hydrological modeling approach to evaluate the resilience capacity of a new water allocation rule in the Laja Lake basin in southern Chile. Resilience assessments included absorptive and adaptive capacities with four system states: resilient, susceptible, resistant, and vulnerable. A modeling approach was used considering the climate variability uncertainty and climate change trends of the Laja system. Characterization of adaptive and absorptive capacities showed that the Laja Lake basin moved from resistant to vulnerable. Hydrological modeling analyses showed that after a new water allocation agreement, the Laja Lake system is moving from vulnerable to susceptible, since the new rule has more adaptive alternatives to face climate variability. The new rule diminishes the possibilities of conflicts among users, ensuring the fulfillment of water needs for uses such as farming and ecosystem services such as landscaping, and allows for increased water allocation for energy in wet hydrological years.