Climate change impacts on water resources have jeopardized human security in the Sahel countries for many decades, especially in achieving food security. Many strategies and policies have been made to address such impacts. However, there are still difficulties to measure progress and the effectiveness of these policies and strategies with regard to climate risks. The lack of practical and consensual monitoring tool is one of the factors that can explain gaps in policies and initiatives to overcome these impacts. To move towards filling this gap, using ClimProspect model and a participatory approach, and based on in-depth vulnerability analysis, this paper makes available some innovative integrated and coherent resilience indicators and a new index for Burkina Faso’s water resources. Taking into account both climate and disaster risks, the indicators and index developed are related to warning, responses, recovery and long term resilience. The indicators-based index applied to three sites shows that agriculture water is less resilient to a changing climate with a score varying from 22.66% to 24%. These tools can help in formulating, implementation and reviewing water policy to secure water resources under the stress of climate change. The approach and findings bring together, on one hand, social and ecological resilience to climate risks, and sciences and policy on the other.