It seems that the separate layout has been replaced by a variant, which is more logical. The right configuration is: Section "InputDevice" Identifier "Generic Keyboard" Driver "kbd" Option "CoreKeyboard" Option "XkbRules" "xorg" Option "XkbModel" "pc104" Option "XkbLayout" "us,cz" Option "XkbVariant" ",qwerty" Option "XkbOptions" "grp:shift_toggle,grp_led:scroll" EndSection (note the comma in the variant specification)