Hy there,
I’m also dealing with similar issues! Published my site just a few hours ago and everything looks normal. but in my webflow designer quite everything is screwed up, backups also seem to be affected.
Im dealing with a deadline tomorrow, so this situation is pretty horrible 
Edit:
@Collin_Arnold came up with a workaround that helps!
https://discourse.webflow.com/t/my-site-looks-broken-on-webflow-mode-but-not-on-my-current-site/86243/2