His goalscoring talent had got him noticed in Europe and in 2000 he signed for Belgian Jupiler League side R. Charleroi S.C. at the age of 21.
He was a substitute for the first few games of the season but when he eventually did start in the black and white shirt he impressed both the management and the fans.
On 26 July 2005, FC Basel announced that Eduardo had signed a one-year contract coming in on a free transfer.
[5] Subsequently Basel dropped into the 2005–06 UEFA Cup, where against NK Široki Brijeg in the first round, they sealed a 6–0 aggregate win to qualify for the Group stage.
In the return leg in Stade de la Meinau on 15 March 2006 Eduardo scored both goals as Basel played a 2–2 draw to win 4–2 on aggregate.
A last-minute goal from Zürich's Iulian Filipescu meant the final score was 1–2 in favour of the away team and it gave FCZ their first national championship since 1980–81.
In the second qualifying round they were drawn against FC Vaduz from Liechtenstein, narrowly progressing on the away goals rule after a 2–2 aggregate draw.
Winning both matches in the qualification round and both matches in the play-off round, they team advanced to the group stage, which they ended undefeated in second position, after playing 1–0 at home against Stade Rennes, 0–0 away against Dinamo Zagreb, 1–0 at home against Brann and 1–1 away against Hamburger SV, to continue the knockout stage.
[13] In the Swiss Cup via FC Léchelles, SC Binningen, Grasshopper Club, Stade Nyonnais and in the semi-final Thun, Basel advanced to the final, and winning this 4–1 against AC Bellinzona they won the competition.
[15] At the end of the 2008–09 Super League season Basel were third in the table, seven points behind new champions Zürich and one adrift of runners-up Young Boys.
[16] On June 18, 2009, he was released by Basel after newly appointed manager Thorsten Fink decided not to offer him a new contract.
[17] After his release by Basel, Eduardo signed with the Major League Soccer club San Jose Earthquakes on 10 February 2010.
[19] In April 2011 Eduardo joined Brasil de Farroupilha and November he retired from his active football career.