Despite its significance in public health, the population genomics of Aedes aegypti is in its infancy. We suspect this dichotomy is largely driven by its relatively large genome size affecting cost of sequencing. Efforts to capture the subset of genomic markers have been conducted using exome capture and microarray technologies. The focus of the population genomic studies has been largely on identifying population structure and investigating insecticide resistance. Recent advances in library preparation technology and availability of a chromosome-level reference assembly allowed whole genome sequence-based study. These developments open new questions that can be addressed with further population genomic data. As with Anopheles gambiae, interests in advancing gene drive-based mosquito control methods are propelling additional collections of Ae. aegypti datasets aimed at characterizing dispersal and population size. With increasing interest in novel genetic control and their application in the field, we expect to accelerate research in characterizing field populations using genomics approaches in the near future.