Many sectors of society have urged a transition from modern conventional agriculture to more sustainable alternatives. One of the most frequently mentioned is agroecology, due to its potential to improve soil health, promote agrobiodiversity, food sovereignty, and regenerate ecosystem functions. However, complex systems such as farms demand the transformation of a broad set of characteristics and practices for its transition. These factors are, in turn, conditioned by social, educational, economic, and political factors. Therefore, a clear understanding of the main drivers behind the management of farms is vital for supporting an effective transition. This research applied the main agroecological structure (MAS) methodology, which employs 10 indicators (5 biological, 5 cultural) to evaluate the degree of connectivity of a farm with the landscape, the agrobiodiversity present in living fences and crops, and the practices employed by farmers to support and preserve it. Finally, the MAS methodology gives farms a score from 0 to 100, understood as the degree of development of its agroecological structure, or as the “resilience” of a system in agroecological transition. Measurements were performed in 20 farms with different degrees of agroecological transition, in five locations of the northern‐central Andean region of Ecuador. The farms had a moderately developed structure on average (71.05 over 100), and MAS variation was not correlated to the size of the farm, nor with its degree of connectivity with the surrounding landscape. It was rather significantly related to the geographic location of the study site. One of the main differences between study sites was a more extended prevalence of cooperation and development programs, suggesting a strong connection between the development of agroecological practices and capacity building processes. For this reason, the author proposes that MAS measurements should be complemented with deeper analyses of the capacity‐building background of each site. This study aims to establish a baseline of the MAS in Ecuador, and to provide new tools for monitoring and supporting agroecological transition.