I don't delete my mods folder. I just move it to my desktop and rename it. Usually we know what's cleared and what's broken within a couple of days.
As mods are cleared or updated, I move them back into my game. (Obviously after downloading the update.) Usually most CAS CC can be moved back immediately as well. If B/B objects break, usually there will be a batch fix from Sims 4 Studio.
If it's been a few days and there are mods whose status I don't know, I test them myself. If they are broken and there's no word from the modder, then I delete them. Luthien has a very helpful thread for this in the mods section.