It's okay. It's done. Not very cleverly, but done.
I made a new folder called CCleanerM, copied the CC files ( .exe and .ini, where the settings are stored) to it, and then made a new pair of shortcuts (in addition to the original one for settings and the original one with the /auto parameter) to the new copy of CC, one for settings, and one with the /auto parameter. Then I opened the new copy and set it for the extensive weekly cleanup, and it stored those settings in its own .ini.
Now Ctrl+Alt+T runs the daily minimalist cleanup, and Ctrl+Alt+M runs the much more extensive maintenance sweep, and each run is independently configurable.
Works. 'Course you gotta have the two .ini files, not the registry settings, to make it work. And if you move a login cookie to the keepers list in one (the daily, say) you have to remember to move it in the other (the weekly) or you'll lose it when you run the latter. But that's only an issue until you get your two keepers lists complete and stable.