Yes, any time new morphs have been added since you last ran the utility it needs to be run so it can add them to the list - and it needs to be run on the complete folder, if you are using ssgbryan system - so you'd unzip to a blank folder, add the new morphs, run the updater, and zip that up again for archiving. (That is, if the morph set describes itself as an ExP expansion set or says the updater is needed - the figures do still have blank channels that can be used by custom morphs, the way V3 etc. did, and those don't need the updater since they aren't adding new files to that system.)