Xabi Alonso's corner was met by the Germany international's head to hand Die Roten the lead and his penalty later confirmed victory, as they ended the visitors' cup aspirations.
Bundesliga
The Austria international struck early in the second half to secure three points for the Bavarians, who have gone eight points clear ahead of Dortmund.
- Bundesliga
- Hits: 1377
Bayern Munich 5-0 Werder Bremen: Thiago and Muller doubles help Guardiola's men get back to winning way
The German champions had picked up just one point from their last two games, but had no trouble in a dominant display ahead of their Champions League tie with Juventus.
Leverkusen coach Roger Schmidt refused to be sent to the stands after he was sent off for protesting Pierre-Emerick Aubameyang's second-half winner over Leverkusen.
The Pole struck as nine minutes to give three points to the champions, who avoided a Champions League hangover to move further clear at the top.
A fiercely tactical battle at Signal Iduna Park could not produce a decisive breakthrough as Thomas Tuchel's men missed the chance to close the gap to two points.
Pep Guardiola's side went behind at Allianz Arena but fought back in the second half with two goals from the Germany international and a Robert Lewandowski strike sealing the win.
The Bundesliga title contenders kept up the pace at the top of the table with a routine win at Signal Iduna Park on Sunday.
- Bundesliga
- Hits: 1242
Wolfsburg 0-2 Bayern Munich: Coman and Lewandowski seal comfortable victory for Bavarians
Pep Guardiola's men dominated huge periods of the game against Wolfsburg but his Bayern side were forced to be patient before eventually finding the net through Coman.
A terrific strike from the Armenia international has allowed BVB to keep the pressure on Bayern at the summit of the German top flight.
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