long term backups shouldn't be necessary because changes in the operators folder are tracked using git.
on save (file>save) tooll combines all recent changes and all previous unpushed commits into a new commit.
this means you should push stable commits so that tooll will not modify them furthermore.
short time backups are already enabled. a complete backup of your subfolders 'config' and 'operators' are archived in the subfolder 'backup'.
if you really want to find out which operators are used by your project, just use export (file>export selection). a 'standalone executable' is generated in the subfolder 'export' containing all necessary operators and assets. the subfolder 'export/operators' only contains operators used by your project.