The history of planning in the Galapagos Islands has received limited attention in the existing Galapagos literature. While socio-ecological research has addressed issues such as introduced species, landscape transformations, and other socio-ecological interactions, few studies have specifically examined the application of different planning approaches and their impacts on human settlements and natural conservation. Given the range of management and development policy tools that have influenced the spatial distribution across the archipelago, planning studies constitute valuable resources for understanding the evolving geographical and socio-ecological contexts of the islands. This chapter analyzes socio-ecological interactions in the Galapagos Islands from a spatial planning perspective. It examines the regulations and boundaries that have delineated protected from colonized areas. The historical review considers the regional development plans of the archipelago, the urban growth of Puerto Baquerizo Moreno, and the spatial transformation of the rural area of El Progreso on San Cristóbal Island, from the designation of Galapagos as a protected natural area up to the present. The findings are cross-referenced with a historical analysis of the management structure of the Galapagos National Park and assessed within the context of the institutional framework dedicated to the ecological preservation of the archipelago. This research represents an initial step toward understanding the spatial interactions between human-made environments and the natural structures of the Galapagos Islands.