Another CGI problem is that the work takes so long to do that you need to book it in often before you've shot the rest of the movie - which means it's harder to make changes. This cropped up in another YT vid, talking about the Ghostbusters reboot IIRC, where the stuff happening in the big action scene near the end didn't really match up with the characters we'd been with for the rest of the movie.
Got a link to that vid? Cant say i noticed anything like that in the trainwreck reboot.