### Godot version

Master (0ddd9c3e8f9088fa139e25b2903289d727073e12)

### System information

PopOS 22.04 - Intel integrated graphics - all backends

### Issue description

When there are popup windows in the editor, I cannot click on the "Confirm"/"Cancel" type buttons at the button. 

I have the issue both in the project manager (importing projects I can click on files etc. but cannot click "open") and when running the editor (cannot click "Save&Quit" etc.)

Sometimes the editor correctly highlights the buttons and I can use the arrow keys to navigate the buttons and "enter" to confirm my selection.

_I can navigate the editor closing dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-24-06](https://user-images.githubusercontent.com/16521339/212774269-d784ea5e-5921-4460-9124-48978939c8e7.png)

_I can't navigate the project import dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-29-00](https://user-images.githubusercontent.com/16521339/212774683-0a80795a-eed4-4e65-b2ca-3562c25d71fd.png)


### Steps to reproduce

Run the editor

### Minimal reproduction project

Reproducible in the project manager
bool keypress = xkeyevent->type == KeyPress;
			Key keycode = KeyMappingX11::get_keycode(keysym_keycode);
			Key physical_keycode = KeyMappingX11::get_scancode(xkeyevent->keycode);
			if (keycode >= Key::A + 32 && keycode <= Key::Z + 32) {
				keycode -= 'a' - 'A';
			}
			String tmp;
			tmp.parse_utf8(utf8string, utf8bytes);
			for (int i = 0; i < tmp.length(); i++) {
				Ref<InputEventKey> k;
				k.instantiate();
				if (physical_keycode == Key::NONE && keycode == Key::NONE && tmp[i] == 0) {
					continue;
				}
				if (keycode == Key::NONE) {
					keycode = (Key)physical_keycode;
				}
				_get_key_modifier_state(xkeyevent->state, k);
				k->set_window_id(p_window);
				k->set_unicode(tmp[i]);
				k->set_pressed(keypress);
				k->set_keycode(keycode);
				k->set_physical_keycode((Key)physical_keycode);
				k->set_echo(false);
				if (k->get_keycode() == Key::BACKTAB) {
					
					k->set_keycode(Key::TAB);
					k->set_physical_keycode(Key::TAB);
					k->set_shift_pressed(true);
				}