Prior to World War II Estonia and Portugal already had a trade agreement. Currently there are seven intergovernmental agreements between Estonia and Portugal:
- Agreement on the Abolishment of Visa Requirements
- Agreement on Co-operation in the Field of Tourism
- Agreement Concerning International Transport of Passengers and Goods by Road
- Co-operation Agreement in the Fields of Language, Education, Culture, Science and Technology, Youth, Sport and Media
- Agreement on the Readmission of Persons
- Convention for the Avoidance of Double Taxation and the Prevention of Income Tax Evasion
- Republic of Estonia and the Portuguese Republic Agreement on Mutual Protection of Classified Information
Co-operation memoranda have also been signed between the Estonian and Portuguese defense ministries and foreign ministries.