The president of the orchestra at La Scala in Milan stepped down on Monday, a week after Riccardo Muti resigned as musical director.
Mr Confalonieri is president of one of Italy's biggest broadcasters
Fedele Confalonieri also gave up his seat on the philharmonic orchestra's board of directors.
His departure is only the latest upset at the legendary Italian opera house.
Mr Muti resigned on 2 April citing "hostility" from members of staff, many of whom had objected to his firing of a senior La Scala official in February.
Mr Confalonieri, who is also president of Mediaset, a broadcaster controlled by Italian Prime Minister Silvio Berlusconi, gave no explanation for his departure in a brief statement released by his company.
La Scala re-opened in December following three years of renovation work to improve its acoustics and ability to stage productions.
But the sacking of one of its top executives, Carlo Fontana, in February prompted concern among La Scala staff.
Performances were cancelled as more than 700 orchestra members and staff demanded Mr Muti's resignation and that of Mr Fontana's replacement, Mauro Meli.
The situation came to a head with Mr Muti's resignation. The world-famous conductor claimed the staff's "theatrical show of hostility" had made it impossible to continue.
His successor has yet to be announced.