-If no values are provided, the specified configuration item will be
-removed from the configuration file.
+The
+.B notmuch new
+command will notice flag changes in filenames and update tags, while
+the
+.B notmuch tag
+and
+.B notmuch restore
+commands will notice tag changes and update flags in filenames.
+
+If there have been any changes in the maildir (new messages added, old
+ones removed or renamed, maildir flags changed, etc.), it is advisable
+to run
+.B notmuch new
+before
+.B notmuch tag
+or
+.B notmuch restore
+commands to ensure the tag changes are properly synchronized to the
+maildir flags, as the commands expect the database and maildir to be
+in sync.