Shogo does not use MUI. It is in it's own screen. I can't click on it from the desktop obviously.
Ikill can also use an argument when used from shell: the task name. Not sure it's particularly handy, though.
There's also "freeze" command, to freeze and unfreeze a task from shell. And finally, you can also freeze tasks with scout, and once related tasks are frozen, you can in theory hope to close related screens/windows manually without trouble.