Following the end of the UEFA Euro 2016 tournament, he was featured in five matches for the next two years. Despite missing out in play-offs, Switzerland went on to qualify for the World Cup after beating Northern Ireland 1–0 on aggragate. Fernandes was included in the Switzerland national football team 23 man squad for the 2018 FIFA World Cup in Russia. However, he was featured as an unused substitute bench, as the national side was eliminated from the tournament, losing 1–0 against Sweden in the last 16. Following this, Fernandes announced his retirement from international football.