This study develops a sustainable housing model for the Mosquitia region of Honduras, aimed at improving the living conditions of indigenous communities and reducing their vulnerability to the effects of climate change. The improved housing efficiency and resilience will contribute to strengthen sanitation and hygiene, improve the living comfort and reduce environmental impact, particularly focusing on preserving the forest biodiversity. The project was developed following the criteria of environmental, technical, social and economic sustainability to propose a shared model, reproducible by the beneficiaries living in different kinds of Mosquitian ecosystems. Increased building efficiency is obtained through optimization of construction techniques and improvement of materials’ performances. The main material of the proposed dwelling is wood, coherently with the “Miskita” tradition; the increase of its durability, which is obtained by proper seasoning and protection from atmospheric agents and parasites, contributes to the optimization of the use of this natural resource and to reducing the impact on deforestation, which threatens forest biodiversity. The data collection campaign, conducted before developing the housing model design and which has aimed at obtaining information on technical and social aspects related to residences’ welfare and health conditions, has highlighted the great importance of improving the construction model. Despite the advance in sanitary conditions and the economic level, the data collection campaign revealed that even the most developed communities amongst those visited have been perpetrating substantial construction errors, which reduce the resilience of structures to extreme natural phenomena, such as tropical storms and hurricanes, which frequently affect the Mosquitia region. This unexpected discovery increased the importance of housing model design in order to correct these improper construction techniques and avoid their application in the newly-started village growth.