The establishment of habitats for immature Ae. aegypti is regulated by biotic and abiotic factors and interactions between these factors. This study aimed to determine the effects of physico-chemical variables and planktonic algae on immature Ae. aegypti habitats in 101 water tanks (50 of them containing Ae. aegypti pupae and/or larvae) in Girardot, Colombia. Physical data were collected from the water tanks (volume, capacity, material, detritus, and location), along with the physico-chemical variables (temperature, pH, conductivity, redox potential, dissolved oxygen, percentage of oxygen saturation, nitrates, nitrites, and orthophosphates). The richness and abundance of the planktonic organisms were also measured. A chi-square test showed that the occurrence of detritus was greater and the container volume was smaller in the tanks that were positive for larvae. Only Cyanobacteria had a positive correlation with the abundance of immature-stage Ae. aegypti. The results could be important for understanding the vector ecology and envisaging its probable control in the domestic water tanks of Girardot.