However they failed to progress as they finished bottom of the group with a 2–1 loss to Charlton at The Old Den and a 1–1 draw with Portsmouth at Fratton Park.
However they again finished bottom of the group with a 3–0 loss to Crystal Palace at Selhurst Park and a 2–2 draw with Charlton at The Den.
As their opponents Manchester United had already qualified for the UEFA Champions League by virtue of their placing in the 2003–04 Premier League, it was guaranteed that Millwall would play in the UEFA Cup, regardless of whether they won or lost the FA Cup final (in the event, they lost 3–0).
[6] Millwall brought 3,000 fans to Budapest for the return leg, which the club lost 3–1 at Stadion Albert Flórián, going out 4–2 on aggregate.
As the other finalist Manchester City had already qualified for Europe, the winner of the semi-final would have entered the 2013–14 UEFA Europa League.