Groundwater vulnerability maps are important decision support tools for water resources protection against pollution and helpful to minimize environmental damage. However, these tools carry a high subjectivity along the multiple steps taken for the development of such maps. Additionally, the theoretical models on which they are based do not consider important parameters such as pollutant concentration or pollutant residence time in a given section of the aquifer, solely focusing the analysis on a theoretical travel time from a release point towards a target. In this work, an integrated methodology for the evaluation of potential (intrinsic) and actual vulnerability is presented. This integrated method, named IKAV, was developed after the analysis of several study cases and the application of multiple intrinsic groundwater vulnerability methods in a selected study area. Also, a solute transport model served as the basis to define additional parameters for vulnerability analysis for areas severely affected by anthropogenic practices. A defined workflow and several criteria for parameters and attributes selection, rating and weighting assignment, and vulnerability classification are presented. The first application of the IKAV method was carried out in the Yucatan karst, demonstrating to be a reliable method for vulnerability estimation. Results demonstrated the scope of the IKAV method to highlight important regional conditions, minimizing the subjectivity, and expanding the analysis of vulnerability.