Simple Summary: Foci of Triatoma infestans were found in the states of Rio Grande do Sul and Bahia, Brazil. The objective of the present work is to evaluate the morphometric differences between populations of residual and wild focus of T. infestans through head geometric morphometry. It is possible to show significant morphometric differences between the studied populations. Furthermore, it is possible to establish a morphometric relationship between these populations and to list hypotheses about the distribution and maintenance of residual foci of T. infestans in Brazil. Abstract: Triatoma infestans is one of the main vectors of Chagas disease in Latin America. Although the species is under control in most Latin countries, it is still necessary to maintain epidemiological surveillance. The present study aims to characterize T. infestans populations from residual foci in Bahia and Rio Grande do Sul, Brazil, comparing them with natural populations in Argentina and Bolivia. For this, we adopt the geometric morphometry of the heads. It is possible to report the morphometric variety of the studied populations. In addition, we show that the size of the heads contributes to the differentiation between populations, while the shape has less power to discriminate groups. Furthermore, we show that some natural populations have morphometric proximity to residual populations, suggesting a relationship between these triatomines. Our data do not support the origin of residual populations but demonstrate the importance of new studies with other techniques to understand the dynamics of distribution and reintroduction of these vectors in Brazilian territory.