[2] On 6 August 2003, he scored the first-ever goal at the new Estádio José Alvalade in a 3–1 friendly win against Manchester United.

After one unsuccessful year in Lisbon, he was deemed surplus to requirements by new coach Quique Sánchez Flores, moving alongside Nuno Assis to UEFA Champions League challenger Vitória S.C. in Guimarães, on loan (Assis permanently); the Minho club retained the option to buy the player at the end of the campaign,[5] but it was not activated.

In 2009–10, as Benfica won the league, Luís Filipe's output consisted of 25 minutes in the 1–0 home victory over FC Porto.

[7][8] Luís Filipe played three league games in the 2010–11 season – one win, one draw and one loss[9][10][11]– with manager Jorge Jesus resting several starters in rounds which brought a Europa League fixture the following week, as the side fared better in that competition and reached the semi-finals.

[14] After retiring, Luís Filipe began working in agriculture, owning a farm in Vilamoura that specialised in the growing of raspberries.