Not sure how this is even getting a mention. It was a very even game, we were better in the first half, they were better in the second one and could’ve been luckier in the shoot out but they weren't.
Is this actually based on the final or on your general stance about club's statures? I assume that you mean the 2005 final and not the 2004 one, I don't really remember Sporting dominating that, even though CSKA were the underdogs going in.
As for the clear and big misses (including the ones from an ancient history):
1954 World Cup.
Literally everything went West Germany's way and even then they needed a questionable offside decision to win that. The group stage result between the same sides (Hungary beat them 8:3) was probably closer to reality.
1968 Euros.
Yugoslavia were the best team of the tournament and they have been a much better side in the original final that ended up with a draw — Italians had managed to score from a scrappy free kick to equalise later on. In the replay they had fielded pretty much a completely new fresh XI which included one of the best players in the world (Riva) and won fair and square — but that replay shouldn't have happened in the first place.
1988 Euros.
Another funny case where the finalists played each other in the group stages with a mirrored result. USSR won the group game, although they probably shouldn't have as Netherlands played better... but Netherlands returned them that favour by winning in the final, where Soviets were the better side. Even Michels himself commented on how unfair the final outcome of that game was (comparing it to the 1974 World Cup final).
This one barely gets any mentions because of:
1. Netherlands finally winning an international tournament (something they deserved to do a very long time ago)
2. van Basten's volley
1999, 2005, 2012 CL finals — I don't think that I really need to expand on them.