What version of Desktop/Server are you using?
Have you tried deleting the workbook from Server and trying a 'clean' publish?
I'm using 10.4.3. I deleted it and republished, but it still has the same issue.
This has been resolved. I don't know what happened today, but when I opened the desktop version today, it looked just like the server version. I fixed it and they are both consistent now.
Thanks for the help anyway.