### 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;
	if (physical_keycode == Key::NONE && keycode == Key::NONE && unicode == 0) {
		return;
	}
	if (keycode == Key::NONE) {
		keycode = (Key)physical_keycode;
	}
	
	
	
	
	
	Ref<InputEventKey> k;
	k.instantiate();
	k->set_window_id(p_window);
	_get_key_modifier_state(xkeyevent->state, k);
	
	
	
	
	
	if (xkeyevent->type != KeyPress) {
		p_echo = false;
		
		
		if (p_event_index + 1 < p_events.size()) {