We are not using identity broker. We solved our issue by importing again the exclusions on IDC.
The upgrade procedure we followed is the below. You can replicate easily on your lab.
1)Export configuration of IDC
2)Uninstall old version of IDC
3)Reboot the windows server
4)Install the latest version of IDC
5)Import config of IDC
6)Establish connectivity with PDP
7)Check IDC status/logs/filters
8)Check PDP status
9)Check the registry value for monitor functionality that is present
10)import again the user exception filter
It seems that step 10 is also needed for exception filters to work as expected. Even though we could see them on IDC configuration the exclusions for service accounts weren't working..