The match lived up to its top Bundesliga billing with an entertaining first half and with Bayern gradually taking control.
But despite Dortmund's jabs forward, Bayern remained in control for much of the match against punishing the yellow and black with a Robert Lewandowski flick taking a fortunate bounce in the 37th minute.
Dortmund have now won just one of their last seven games in all competitions, a miserable run which has seen them surrender a five-point lead over Bayern in the league.
"My opinion is: The way you practice has a direct effect on how you perform in the games", the 1980 European champion said, adding that training intensity has increased and his team still needs time to adapt.
Dortmund passed up a glorious chance to halve the deficit when a lack of communication between Aubameyang and Yarmolenko saw them stop one another from converting Christian Pulisic's cutback.
As 33-year-old Arjen Robben's FCB career draws to a close (as well as 34-year-old winger Franck Ribery's), the 27-time German champions should be looking at Pulisic as the ideal replacement, according to the 1990 Ballon d'Or winner. The United States forward, who has only one goal in nine appearances this season, remained on the bench.
They now lead second-placed RB Leipzig by four points and are six ahead of third-placed Dortmund.
Many eagle-eyed football fans noticed something very strange about the boots he was wearing.
Meanwhile, reports out of Germany say the United States men's national team will not have its best player for the Nov. 14 friendly versus Portugal.
Domestically, they had sought recourse to their arch-Bavarian ability to win games, by way of mentality and individual class, in lieu of truly convincing performances. Despite the Brazilian international's consistency, he does not possess the tactical intelligence, youth and talent that Joshua Kimmich possesses. "Both toes are a bit injured at the moment".
While Heynckes has spoken of his admiration for Can's development, he has also questioned whether the midfielder's game would suit Bayern.
"We have six or seven months left in the Bundesliga". The midfielder was then unlucky to deflect the ball over Burki. This will be a major problem as Bartra lacks the pace to play in a fullback position. A shame that Dortmund's arguably best player of recent weeks did not start. Dortmund managed to restore some pride with a late finish from Marc Bartra, yet it was far too little too late. Matthaus continued. "With his confidence and his speed, he is called to higher [things]".