### 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
static const char *target_type = "text/uri-list";
	for (int i = 0; i < p_count; i++) {
		Atom atom = p_list[i];
		if (atom != None && get_atom_name(p_display, atom) == target_type) {
			return atom;
		}
	}
	return None;
}
static Atom pick_target_from_atoms(Display *p_disp, Atom p_t1, Atom p_t2, Atom p_t3) {
	static const char *target_type = "text/uri-list";
	if (p_t1 != None && get_atom_name(p_disp, p_t1) == target_type) {
		return p_t1;
	}
	if (p_t2 != None && get_atom_name(p_disp, p_t2) == target_type) {
		return p_t2;
	}
	if (p_t3 != None && get_atom_name(p_disp, p_t3) == target_type) {
		return p_t3;
	}
	return None;
}
void DisplayServerX11::_get_key_modifier_state(unsigned int p_x11_state, Ref<InputEventWithModifiers> state) {
	state->set_shift_pressed((p_x11_state & ShiftMask));
	state->set_ctrl_pressed((p_x11_state & ControlMask));
	state->set_alt_pressed((p_x11_state & Mod1Mask )); 
	state->set_meta_pressed((p_x11_state & Mod4Mask));
}
BitField<MouseButtonMask> DisplayServerX11::_get_mouse_button_state(MouseButton p_x11_button, int p_x11_type) {