On Gnome Wayland you can unset the keybindings for virtual terminal switching by setting these dconf properties:
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-1 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-2 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-3 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-4 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-5 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-6 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-7 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-8 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-9 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-10 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-11 "['']"
dconf write /org/gnome/mutter/wayland/keybindings/switch-to-session-12 "['']"