There was better news for Coman, though, who has been out of action since the end of August due to torn ankle ligaments.
"The 22-year-old participated in an intensive warm-up and passing drills before returning to his individual recovery programme on a neighbouring pitch," Bayern said in a statement.
Arjen Robben joined in with the team after missing Bayern's last match before the international break, a 3-2 away loss to rivals Borussia Dortmund.
Robben sat the Klassiker out with a knee injury but took part in the warm-up with the rest of his team-mates.
As things stand, Bayern sit fifth in the Bundesliga, seven points behind league-leaders Borussia Dortmund with Borussia Monchengbladbach, RB Leipzig and Eintracht Frankfurt sitting second, third and fourth, respectively.