Muller-Wohlfahrt, who had been with the German champions for almost four decades, said in a statement that the “relationship of trust has been damaged”.
The 72-year-old, also involved with the German national team for several decades, felt his team had been “made responsible for the defeat (to Porto) for inexplicable reasons,” sport1.de reported.
The other three members who walked out were Muller-Wohlfahrt’s son, Kilian, as well as Peter Ueblacker and Lutz Hänsel.
Bayern were missing five key players for the 3-1 defeat in Portugal with Franck Ribery, Arjen Robben, David Alaba, Bastian Schweinsteiger and Javi Martinez all sidelined.
It has been reported that coach Pep Guardiola is not completely satisfied with Dr Muller-Wohlfahrt’s work, although he has not publicly pointed the finger at him.
Last year, Guardiola advised Thiago Alcantara to seek treatment in Spain at his own preferred doctor rather than follow Dr Muller-Wohlfahrt’s advice, with Bayern sending one of their own doctors along to observe the work being carried out.
Muller-Wohlfahrt has been Bayern’s club doctor since 1977, although he did resign once in 2008 when Jurgen Klinsmann was in charge.
As soon as Klinsmann was sacked, he returned to the club and has been responsible for their medical department since.
He is a trusted doctor with high-profile clients such as Usain Bolt regularly seeking his advice and treatment for their injuries. It is believed he will be continuing in his role as doctor for the Germany national team.