Change from US keyboard layout to SK disables CTRL shortcuts

From few month ago, I have noticed that CTRL related shortcuts, like CTRL-C, CTRL-V, CTRL-F. CTRL-arrow left and other for moving text/cursor in editor are not working while I have SK keyboard layout. I didn't know what was the reason until today. I noticed once I go back to US layout it all works. This was never issue some time ago. I am working a lot in Slovak (SK) language and during writing I am using these shortcuts for moving and editing around editor. I tried same in terminal application and behavior is the same. Even now in firefox when I switch to SK keyboard layout I can not do word back jump using CTRL + left arrow and similar.
For clarification, these keys variants or keys without CTRL are not remapped to any other keys in SK layout then they are in US layout.

Thank you for your kind help.
-r-

inxi -Fxxxz
System:    Host: rDELL Kernel: 4.19.114-1-MANJARO x86_64 bits: 64 compiler: gcc v: 9.3.0 Desktop: Gnome 3.36.1 
           wm: gnome-shell dm: GDM 3.34.1 Distro: Manjaro Linux 
Machine:   Type: Laptop System: Dell product: Latitude E7470 v: N/A serial: <filter> Chassis: type: 9 
           serial: <filter> 
           Mobo: Dell model: 0T6HHJ v: A00 serial: <filter> UEFI [Legacy]: Dell v: 1.21.6 date: 05/20/2019 
Battery:   ID-1: BAT0 charge: 20.9 Wh condition: 50.3/55.0 Wh (91%) volts: 7.5/7.6 model: SMP DELL MC34Y51 
           type: Li-poly serial: <filter> status: Discharging 
CPU:       Topology: Dual Core model: Intel Core i5-6300U bits: 64 type: MT MCP arch: Skylake rev: 3 
           L2 cache: 3072 KiB 
           flags: avx avx2 lm nx pae sse sse2 sse3 sse4_1 sse4_2 ssse3 vmx bogomips: 19968 
           Speed: 500 MHz min/max: 400/3000 MHz Core speeds (MHz): 1: 500 2: 500 3: 500 4: 500 
Graphics:  Device-1: Intel Skylake GT2 [HD Graphics 520] vendor: Dell Latitude E7470 driver: i915 v: kernel 
           bus ID: 00:02.0 chip ID: 8086:1916 
           Display: x11 server: X.org 1.20.8 driver: i915 compositor: gnome-shell resolution: <xdpyinfo missing> 
           OpenGL: renderer: Mesa Intel HD Graphics 520 (SKL GT2) v: 4.6 Mesa 20.0.4 direct render: Yes 
Audio:     Device-1: Intel Sunrise Point-LP HD Audio vendor: Dell Latitude E7470 driver: snd_hda_intel v: kernel 
           bus ID: 00:1f.3 chip ID: 8086:9d70 
           Sound Server: ALSA v: k4.19.114-1-MANJARO 
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           bus ID: 00:1f.6 chip ID: 8086:156f 
           IF: enp0s31f6 state: down mac: <filter> 
           Device-2: Intel Wireless 8260 driver: iwlwifi v: kernel port: f040 bus ID: 01:00.0 chip ID: 8086:24f3 
           IF: wlp1s0 state: up mac: <filter> 
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           serial: <filter> rev: D07N scheme: MBR 
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           chip ID: 8086.282a rev: 21 
Partition: ID-1: / size: 225.06 GiB used: 59.91 GiB (26.6%) fs: ext4 dev: /dev/sda1 
           ID-2: swap-1 size: 8.80 GiB used: 4.5 MiB (0.1%) fs: swap dev: /dev/sda2 
Sensors:   System Temperatures: cpu: 32.5 C mobo: N/A 
           Fan Speeds (RPM): cpu: 0 
Info:      Processes: 236 Uptime: 2d 16h 41m Memory: 7.47 GiB used: 2.52 GiB (33.7%) Init: systemd v: 244 Compilers: 
           gcc: 9.3.0 Shell: bash v: 5.0.16 running in: gnome-terminal inxi: 3.0.37 

Manjaro does not change or modify the keyboard layout so I suspect your keyboard layout settings is wrong - somehow.

➜  ~ cat /etc/vconsole.conf
➜  ~ cat /etc/X11/xorg.conf.d/00-keyboard.conf

I have noticed that there is certain duplication and maybe even contraindication between settings of layout of keyboard between settings in gnome and in manjaro itself. I discover different dialog box, the one call manjaro settings.
I use to modified layout in the GNOME settings that was not reflected in manjaro. In past it seems to be working fine but in recent updates, I think, it gets out of sync.
At the moment I have set layout properly in manjaro settings and kept gnome as it was (two layouts, one US and one SK) All seems to be fine.

Can anybody help me understand the relation between manjaro keyboard settings and GNOME?

I think I was to early to declare that all is working, it was and now it is not working again. I have no idea what is going on. Without any change in configuration it all works fine after reboot, but after while 30-90 minutes it is gone.
When I switch keyboard from US to SK using gnome hotkey then I can not use any CTRL + letter combinations as I would expect.
Here are the output from the commands

$ cat /etc/X11/xorg.conf.d/00-keyboard.conf
# Written by systemd-localed(8), read by systemd-localed and Xorg. It's
# probably wise not to edit this file manually. Use localectl(1) to
# instruct systemd-localed to update it.
Section "InputClass"
        Identifier "system-keyboard"
        MatchIsKeyboard "on"
        Option "XkbLayout" "us"
        Option "XkbModel" "latitude"
        Option "XkbVariant" "cz_sk_de"
EndSection

$ cat /etc/X11/xorg.conf.d/00-keyboard.conf
# Written by systemd-localed(8), read by systemd-localed and Xorg. It's
# probably wise not to edit this file manually. Use localectl(1) to
# instruct systemd-localed to update it.
Section "InputClass"
        Identifier "system-keyboard"
        MatchIsKeyboard "on"
        Option "XkbLayout" "us"
        Option "XkbModel" "latitude"
        Option "XkbVariant" "cz_sk_de"
EndSection

I am reading this wiki and tried output from showkey and there seems to be difference between same keys when they are in US layout and when they are pressed in SK layout (switching layout using GNOME hotkey). There is also note that output may be modified by X server as its also reading /dev/console.

I really would appreciate some help I am lost. Now keyboard even sometimes doesn't switch to SK layout. It is fixed by logout and login (X server restart?)

here output from showkey I was pressing CTRL+left_arrow followed by CTRL-right arrow few times:

# showkey --scancodes
kb mode was ?UNKNOWN?
[ if you are trying this under X, it might not work
since the X server is also reading /dev/console ]

press any key (program terminates 10s after last keypress)...
0x9c 
0x1d 
^[[1;5C0x1d 0x1d 0x1d 0x1d 0x1d 0xe0 0x4d 
0xe0 0xcd 
^[[1;5D0xe0 0x4b 
0xe0 0xcb 
^[[1;5C0xe0 0x4d 
0xe0 0xcd 
0x9d 

Somewhere here I switch the layout from US to SK using [WIN+SPACE] and the output is different:

0xe0 0x5b 
0x39 
0xb9 
0xe0 0xdb 
0x1d 
0x1d 0x1d 0x1d 0x1d 0x1d 0x1d 0xe0 0x4d 
0xe0 0xcd 
0xe0 0x4b 
0xe0 0xcb 
0xe0 0x4d 
0xe0 0xcd 
0xe0 0x4b 
0xe0 0xcb 
0xe0 0x4d 
0xe0 0xcd 
0x9d 

I switched to Wayland from X11 and issue is not there all works fine
strange found this here" Gnome clipboard issue

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