I used to work with mac os a while ago an now I am coming back. What I noticed is regular preferences update doesn't work for at least Terminal.app. This happens on any High Sierra.
Preferences
either through a menu or Cmd-,
. What's going on ? Looks like a bug to me, perhaps I have missed something since Lion release.
It could be that your preferences are "stuck." Preferences in macOS has been broken for awhile now and can sometimes get into a state where the app can't read changes made, or changes never get applied.
Try deleting your ~/Library/Preferences/com.apple.Terminal.plist
file along with any com.apple.Terminal.plist.lockfile
and com.apple.Terminal.plist.<RANDOM>
companion files you find. Restart your system and try it again.
Another way is to look at the ~/Library/Preferences/com.apple.Terminal.plist
permissions. You may see something like this
Now if you run something like
sudo chown evgeniy.sharapov:staff ~/Library/Preferences/com.apple.Terminal.plist
And restart the Terminal.app, it seems to go back to normal and able to save changes in Preferences.