The Editor Data DLC was not brought up-to-date with Patch 3. For example, files like DivinityOrigins_1301db3d-1f54-4e98-9be5-5094030916e4\Stats\Stats\Armor.stats are still using the pre-RuneSlots_V1 data. Effectively, this means that any override mods created after Patch 3 are potentially reverting Patch 3 data changes.