This document provides a methodological framework for assessing the impact of EU Free Trade Agreements (FTAs) on biodiversity. The methodology outlines a stepwise process on how to set up and carry out an assessment of the impacts of trade liberalisation on biodiversity in a structured and consistent manner, with a special focus on quantifying the impacts. The methodology is designed to be implemented as part of the Commission’s overall trade impact assessment process, both before and/or during the trade negotiations (ex-ante) and when trade agreements are in place (expost). It is flexible to be used in the context of various types of agreements and partner countries.