Chelsea have enjoyed some special nights with, and without, the self proclaimed 'Special One' in the last decade or so, but tonight just wasn't their night.
The evening belonged to Atletico and Diego Simeone as goals from Diego Lopez, Diego Costa and Arda Turan cancelled out Fernando Torres' opener.
Chelsea struggled to get going in the early stages and it was Atletico who could have taken the lead after just four minutes. Koke, who failed to impress in the first leg, attempted a cross, which - fortunately for Chelsea - hit the cross bar and stayed out of Mark Schwarzer's goal.
The Blues slowly but surely tried to stamp their mark on the game, but a poor free-kick from Ramires was all they had to show from the opening 20 minutes.
Then, a moment of genius almost opened the scoring in the tie as flamboyant Brazilian star David Luiz just missed the target after an over head kick.
Atletico were trying to play their brilliant football that has taken La Liga by storm this season, but the likes of Gary Cahill and John Terry were picking up the pieces at the back.
With 10 of the first half remaining, the opening goal of the tie arrived.
As Chelsea fought for every ball, they attacked down the right through Willian and Hazard, who picked out Fernando Torres. The Spaniard didn't disappoint and his strike from 10 yards - with a deflection on the way through - gave Chelsea the lead.
Chelsea had stuck to Mourinho's plan for 44 minutes, however with half-time approaching Atletico struck through Diego Lopez.
One lapse of concentration at the back from Terry and Co. cost the Blues and the Spanish giants went into the break with the away goal - and ultimately the advantage.
Half time: Chelsea (1) 1-1 (1) Atletico Madrid
Atletico started the second half with real intent and almost struck as the ball ran across Chelsea's back-line, only for Schwarzer to tip Arda Turan's effort over the bar.
Simeone's side were taking control and the likes of Koke, Lopez and Co. were starting to frustrate the Blues.
Five minutes or so into the second period and Mourinho had seen enough as he replaced Ashley Cole with striker Samuel Eto'o.
However, Eto - who came on to change the game - handed Atletico the initiative as he brought down Diego Costa in the penalty area.
Costa, who has been linked with a summer move to the Blues, certainly angered a few Chelsea supporters as he took his time placing the ball on the spot. He was consequently booked for his actions, but it was the Brazilian born Spanish striker who had the last laugh as his penalty flew past Schwarzer and into the roof of the net.
Chelsea's hopes of securing a place in a European final for the third consecutive year were diminishing in front of the Blues faithful.
Mourinho's side weren't done, however, as they hit the woodwork after a great header from Luiz rattled the post and was then claimed by Courtois.
With Chelsea searching for two goals, Demba Ba - the hero of the quarter-final - was sent on, but it was Atletico who got the fourth and final goal of the game.
Arda Turan put Chelsea's European dreams to rest as he tapped home after initially hitting the bar from 14 yards.
And, in truth, that-was-that. Chelsea just couldn't recover, despite showing fight and character until the very end.
It was Atletcio's night and the brilliant Simeone has set up an all Madrid Champions League final for next month.
Lisbon, hosting its first European final since 1967, will see Atletico Madrid and Real Madrid take to the field on May 24.
Full time: Chelsea (1) 1 - 3 (3) Atletico