Bryan Hughes converted the final penalty and Charlton knocked defending champion Chelsea out of the English League Cup 5-4 in the shootout tiebreaker on Wednesday after a 1-1 draw at Stamford Bridge.
It was Chelsea's first loss of the season after nine wins and a draw in the Premier League and two victories and a draw in the Champions League.
The loss comes a day after Crystal Palace upset Liverpool 2-1 and leaves the tournament without either of last season's finalists.
Chelsea captain John Terry headed the Blues in front in the 41st only for Darren Bent to capitalize on a poor back header by German defender Robert Huth to equalize for Charlton four minutes later.
After a goalless extra time, Stephan Andersen saved Huth's penalty try on Chelsea's second attempt, setting up Hughes for his clincher.
"I thought we were unlucky," Mourinho said. "I want to give my congratulations to them because they won. But we were the best team. We had chances to win the match in normal and extra time. But they defended everything and fought a lot.
"When you go to penalties, anything can happen. But I have no complaints about my players. It is not one of those days when you go to the dressing and want to kill half-a-dozen. I have no complaints because we took the game seriously."
Manchester United, Newcastle, Bolton and Middlesbrough also made it to the last 16. Manchester United beat League Three Barnet 4-1, Newcastle won 1-0 at League Two Grimsby, Bolton edged West Ham 1-0 and Middlesbrough won 1-0 at Everton.
Manchester United was handed a man advantage at Old Trafford when Barnet goalkeeper Ross Flitney was sent off for catching the ball outside his area 90 seconds into the game, and quickly took advantage. Despite fielding a team of reserves, including Manchester United American goalkeeper Tim Howard, Manchester United took a 2-0 lead by the 23rd minute on goals by Liam Miller and a Kieran Richardson free kick.
Giuseppe Rossi added a third in the 51st and, after Dean Sinclair replied for Barnet 16 minutes from the end, Sylvain Ebanks-Blake completed the scoring for the Reds.
Alan Shearer scored Newcastle's winner in the 80th at Grimsby, which upset Tottenham in the previous round. But the former England captain was furious that no action was taken by the referee after Grimsby defender Justin Whittle appeared to catch him in the face with his elbow.
"It would have been easy for me to go out there and stick one on him because that is what I wanted to do," said Shearer, who needed stitched in a gash above his top lip.
"He has done me, it was blatant. The referee was five yards away and he did nothing."
Mexican striker Jared Borgetti's 63rd-minute winner led Bolton over West Ham and Jimmy Floyd Hasselbaink paced Middlesbrough over Everton.
That result compounded the troubles of David Moyes' Everton, which finished fourth in the Premier League last season but has been eliminated from three competitions this season -- the Champions League, UEFA Cup and League Cup -- as well as lying last in the Premier League.
Jermaine Pennant put Birmingham ahead at St. Andrews only for defender Martin Taylor to deflect a shot from Norwich striker Dean Ashton into his own net for an equalizer four minutes before halftime.
Birmingham's Finnish striker Mikael Forssell missed a penalty but Czech midfielder Jiri Jarosik, on loan from Chelsea, scored the winner with a powerful 30m strike four minutes from the end.
Hearts stayed three points atop of the league with a 1-0 victory over Kilmarnock, while Rangers squandered a two-goal lead and was held to a 2-2 draw by last-place Livingston and Stilian Petrov's three goals helped Celtic crush Motherwell 5-0.
Czech forward Rudi Skacel, who has scored nine goals this season, set up Lithuanian international Edgaras Jankauskas in the 35th minute for the only goal for Hearts, whose manager George Burley resigned on Saturday in a dispute with majority shareholder Vladimir Romanov.
The result gave unbeaten Hearts 32 points from 10 victories and two draws. But Celtic stayed three points, getting goals from Shaun Maloney and Japanese forward Shunsuke Nakamura in addition to Petrov's three.
Rangers led at Livingston after goals by Darren Ferguson and Chris Burke. But Robert Snodgrass scored twice in eight minutes to earn the home side only its fourth point of the season.
The result left Rangers in fourth place, 11 points behind Hearts and eight behind Celtic.
In Wednesday's other games, third place Hibernian won 2-1 at Dunfermline, and Falkirk won 3-0 at Inverness.
Substitute Achille Webo scored the winner in injury time and Osasuna edged Atletic Bilbao 3-2 to move atop the league.
The Cameroon striker sent a rising shot past Daniel Aranzubia after the Bilbao keeper parried a chance by Valmiro Lopes.
The victory was Osasuna's fourth in five games and gave the club 18 points, moving it one past Getafe, two ahead of FC Barcelona and Celta Vigo and with three more than Real Madrid, Villarreal and Valencia.
Mallorca beat Celta 1-0, Villarreal won 3-2 at Real Betis.
Juventus beat Sampdoria 2-0 for its record ninth straight win to start the Serie A season.
French striker David Trezeguet scored off a corner kick in the 41st minute and provided the assist on Romanian forward Adrian Mutu's goal in the 57th.
Juventus surpassed the previous league record of eight wins to start the season by two predecessors: The 1930-1931 team and Giovanni Trapattoni's squad in 1985-1986. In both cases, Juve went on to win the title.
The record for most outright consecutive wins in Serie A is 10, shared by Juventus (1931-1932), AC Milan (1950-1951) and Bologna (1963-1964). Juventus can match that record when it visits Milan on Saturday.
"Instead of the record I'm already thinking about Saturday," Juventus coach Fabio Capello told Italy's Sky TV. "This team has shown it's very solid, it has the will to win, and it's tough to beat."
With its perfect record, Juventus has 27 points, five more than second-placed Milan. Fiorentina followed with 19, and Inter Milan with 18.
George Best's health deteriorated dramatically on Wednesday, his former wife Alex said, renewing fears that the former Manchester United star was near death three years after undergoing a liver transplant.
Best, known for a hard-drinking lifestyle, has been hospitalized for three weeks because of reactions to his medication.
His agent, Phil Hughes, said on Tuesday his condition appeared to be improving. But Alex Best, who divorced the former Northern Ireland international last year, said there was a big change in the 59-year-old's health on Wednesday.
"I have been told that George's condition has deteriorated dramatically during today," Alex Best said as she left the private Cromwell Hospital in west London.
"I am just praying that, once again, he somehow manages to pull through against all the odds. My thoughts and prayers are with him."
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