The draw trims Bayern's lead at the top of the Bundesliga table to five points ahead of second-placed RB Leipzig, who romped to a 4-1 win at Werder Bremen.
Hansi Flick, Hasan Salihamidzic can no longer work together at Bayern Munich, say Lothar Matthaeus and Stefan Effenberg
Friction between Salihamidzic and Flick, which has brewed all season, has boiled over in the last few days.
Behind the scenes, confirmation of Boateng's exit is causing tension.
Bayern had their 19-match unbeaten run in the Champions League ended in a repeat of last year's final, as the German giants suffered their first European defeat since March 2019.
"Serge has a sore throat and will probably be out as well," Bayern coach Hansi Flick said Tuesday ahead of the quarter-final, first leg at home with the return in Paris next Tuesday.
Bundesliga: Bayern Munich CEO Karl-Heinz Rummenigge dismisses talks of manager Hansi Flick’s departure
Flick, 56, has been named among the favourites to take over from departing Germany boss Loew when the 61-year-old ends a 15-year spell in charge of the national team after this summer's European Championships.
"We gave the go-ahead for both players," said Bayern coach Hansi Flick after the Bundesliga leader's 4-0 thrashing of Stuttgart.
Bayern Munich head coach Hansi Flick says differences with sporting director Hasan Salihamidzic sorted
Flick said the talks were important for "both of us, for the team and the club".
Should Manuel Neuer drop out, reserve goalkeeper Alexander Nuebel could make only his third start this season.
Joachim Loew announced on Tuesday that he will step down as Germany head coach in July. Who are the likely candidates to replace him?
Bundesliga: Robert Lewandowski's hattrick helps Bayern Munich beat Borussia Dortmund; Hertha Berlin edge Augsburg
Lewandowski completed his hattrick in the last minute, just after Leon Goretzka put Bayern ahead for the first time. Erling Haaland had fired the visitors into an early two-goal lead.
Bayern suffered a 2-1 defeat at Eintracht Frankfurt on Saturday following a 3-3 draw against strugglers Arminia Bielefeld upon their return from winning the Club World Cup in Qatar 11 days ago
Pavard is the fourth Bayern player to have contracted the virus, after Leon Goretzka, Javi Martinez and Thomas Muller all tested positive in recent weeks.
David Alaba's announcement came two days after Bayern signed French defender Dayot Upamecano from Leipzig on a five-year contract.
Bayern Munich are bidding to become only the second club after Barcelona, who managed it in 2009, to win all six domestic and international titles available in a single season.
FIFA Club World Cup: Winning’s in our DNA, says Bayern Munich chairman Karl-Heinz Rummenigge ahead of semi-final
Bayern have already won the German league and cup, Champions League as well as the German and European Super Cups in 2020.
Bundesliga: Bayern Munich stay seven points clear at top after win over Hoffenheim; Borussia Dortmund also claim victory
The European champions exacted perfect revenge for their only defeat of 2020 after losing by the same 4-1 scoreline at Hoffenheim last September.
German Cup: Bayern Munich knocked out of tournament for first time in 20 years by second-division team Holstein Kiel
Bayern led twice but allowed Kiel to equalize for a second time and make it 2-2 in the 90th minute. After extra time, Fin Bartels converted the winning penalty to give Kiel a 6-5 win in the shootout.
Bayern Munich were 2-0 up after 26 minutes, thanks to a Robert Lewandowski penalty and a superb Leon Goretzka goal at Borussia Park.
Bundesliga: Leroy Sane has to 'justify' price tag, says Bayern Munich chairman Karl-Heinz Rummenigge
A string of disappointing performances by Sane since he joined in a 50-million-euro ($61 million) move in the summer was capped on Saturday when he was removed just half an hour after entering the field as a substitute in Bayern's 2-1 win against Bayer Leverkusen.