The enigmatic manager, who received abuse from the home fans throughout, still found time to criticise referee Phil Dowd, with whom the Portuguese fell out on a few occasions during the match.
"Was the referee very poor in the second half? Yes," Mourinho said.
"But even with a perfect referee would Chelsea win? No. The second goal was offside but we were never close to being dominant.
"City played much better than us and they deserved to win.
"Two weeks ago the best team won and it was the same today.
"When the best team wins I think football is in peace."
City have scored 20 more goals than Chelsea in the league so far this season and it was easy to see why after Saturday's match.
Goalkeeper Costel Pantilimon did not have a save of note to make all match as Samuel Eto'o and second-half substitute Fernando Torres both had poor games.
Mourinho, who has admitted he wants to sign a forward in the summer, kept his frustrations regarding his misfiring strikeforce to himself after the match.
"There are things I cannot say," Mourinho said when asked about his team's troubles in front of goal this season.
"There are things I can just think and keep to myself. I don't want to individualise to speak about my striker or my keeper or my left-back. We are a team, we win, we lose."
Mourinho was more forthcoming when he was asked about the furore caused by his pre-match comments regarding Arsene Wenger.
The Chelsea boss was accused of over-stepping his mark when he branded the Arsenal manager "a specialist in failure".
The Portuguese pointed the finger at the media for apparently painting him as "the bad guy".
"It is your (the media's) fault," the former Real Madrid manager said.
"It is always the same guy, the bad guy. One is polite (Wenger) and the other is the bad guy."