I had "Remove in-raid restriction" turned on as well, even made a new preset profile just in case.
Even tried with just SVM as the mod, still can't get cases in backpack working either.
Since i was browsing code i came up with the thought - you probably trying to put an item not on primary cell, like if you tried to put in smaller cells of mechanism or into theta slots, code didn't age well - SVM only supports primary, will be fixed in SPT 4.0 however.