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The IAI is implementing a tripartite structure with headquarters operations moving to Montevideo and a strategic office in Buenos Aires. Research priorities include monitoring CRN3 projects, finalizing a MacArthur Foundation project on tropical Andean biodiversity, and leading the Latin American network for Future Earth. Capacity building includes a modeling event in Panama City and the management of seed grants. Policy engagement focuses on contributions to IPBES, the UNFCCC's SBSTA, and planned events for the UNFCCC COP in Lima regarding environmental monitoring and global change governance.

The IAI's 2012-2013 plan includes the launch of CRN3, co-financing agreements with the NSF's PIRE program, and a MacArthur Foundation project on biodiversity in the tropical Andes. Capacity building events are scheduled for Chile, the Dominican Republic, and Ecuador, alongside an editorial forum in Buenos Aires. Administratively, the institute plans to move to Montevideo to address operational instability.

The IAI's annual plan for 2010-2011 focuses on four training institutes, scientific synthesis meetings, and the implementation of the MacArthur Project concerning Andean biodiversity. Key activities include training on seasonal climate predictions in Argentina, city responses to climate change in Chile, and land-use changes in Paraguay. The scientific program includes hydrology and climate modeling, as well as a new proposal to the MacArthur Foundation regarding climate impacts on tropical Andean biodiversity. The plan also details a project to assess institutional and research needs in Bolivia, Ecuador, Peru, and Colombia to address climate effects on biodiversity.

The IAI's 2016-2017 plan focuses on enhancing interdisciplinary research through the CRN3 projects and new grants on ecosystem services for adaptation. Key capacity-building initiatives include professional seminars in Costa Rica, Chile, Dominican Republic, and Canada, as well as an advanced science school on the nitrogen cycle in Brazil. The institute aims to strengthen science-policy links through a MOOC launched at COP 22, a partnership with IPBES, and participation in the UN High-Level Political Forum regarding the 2030 Agenda for Sustainable Development.