I noticed when I changed my fallout4.ini from the old long strings version to the new invalidateolderfiles version , my mods acted all kinds of stupid, some quit working and all. I changed my ini file back to the old edit, long strings version, and all was good again. I really wish the team at nexus would update the mod manager to quit directing people to change their ini edit to the new one. As this is apparently not a one size fits all kind of thing.