I upgraded one of other SEPMs last week. When upgrading a SEP 11 version to another SEP 11 version the migration and deployment wizard doesn't need to be used correct? A straight up setup.exe installation over top of the earlier version is how it's done?
I did get a "Failed to install Management Server Service. You should restart your computer and try again." error when upgrading but after rebooting, (the management server service was not installed) but after trying again it worked.
After what looks like the SEPM upgrade being finished another window pops up "Management Server Configuration Wizard". (This is where it failed the first time). The second time it finishes successfully.
After upgrading the SEPM the old Client Install Packages (11.0.4000.2295) are there but the new version packages have not been added. I haven't installed SEPM in a while and I don't remember having to install the packages separately, I thought it was part of the install process.