How to reproduce:
Focus on a window then use the "Move window to previous/next desktop & follow" command once. It will work as expected. now try to use the command repeatedly. The desired window won't be moved and followed.
Probable Cause:
I think it is the "Overlay" popup window which is shown after every VD switch, gets the window focus thus the main window loses it's focus.
I Further tested it by turning it off which resolves the issue. One can also reduce the overlay duration or wait till the overlay disappears to use the command as usual.