Scrollwheel and Trackpad Scrolling Stop Working After Virtual OS Update

I’ve created a couple virtual machines in Boxes, using the Download OS option (Fedora Workstation 42 + KDE, Fedora Silverblue 42 + Budgie). When first installed, I can use the mouse scrollwheel and 2-finger scroll on my trackpad in all apps running in the virtual machines. But after I install software updates in the virtual OSes, scrolling no longer works. I have to use the mouse cursor to grab the scrollbar.

Host OS: Fedora Silverblue 42 running Gnome on Wayland; Boxes installed as Flatpak from Flathub.

Besides not installing updates, any suggestions for a fix?

I have the same problem after the update to fedora silverblue 2025-07-13 I think.
The only difference to me, I use the fedora installation as bare metal.

A solution or a quick fix would be really helpful, because the pc is usable but I drives me cracy to not be able to scroll.