Karst represents approximately 15% of the planet’s surface, hundreds of millions of people live on and rely on these aquifers for water supply and agricultural irrigation. In karstic landscapes, groundwater is exposed in sinkholes, inundated caves, and artesian wells, which are two-way communication spots. When the phreatic level is exposed, the groundwater can change substantially as a result of anthropogenic impacts, modifying the water quality and the environmental integrity by incoming excess nutrients, contaminants, pathogens, and other hazardous substances such as metals and microplastics. In this paper, we develop and test a multimetric index to evaluate the condition status of dolines located within urban areas, including seven indicators: trophic index, fecal bacteria, fecal viruses, microplastics, heavy metals, zooplankton biodiversity, and fish biodiversity. Lastly, we made a proof of concept for the index in the dolines on the island of Cozumel (Mexico), resulting in evaluations from fair to good. The index is powerful due to its sensitivity to pathogens and exotic invasive species. This additive weighted index allows to assess the condition status of dolines in urban areas anywhere in the world; if required, modifications are possible.