### 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
int number_of_screens = XScreenCount(x11_display);
	for (int i = 0; i < number_of_screens; i++) {
		Window root, child;
		int root_x, root_y, win_x, win_y;
		unsigned int mask;
		if (XQueryPointer(x11_display, XRootWindow(x11_display, i), &root, &child, &root_x, &root_y, &win_x, &win_y, &mask)) {
			XWindowAttributes root_attrs;
			XGetWindowAttributes(x11_display, root, &root_attrs);
			return Vector2i(root_attrs.x + root_x, root_attrs.y + root_y);
		}
	}
	return Vector2i();
}
BitField<MouseButtonMask> DisplayServerX11::mouse_get_button_state() const {
	return last_button_state;
}
void DisplayServerX11::clipboard_set(const String &p_text) {
	_THREAD_SAFE_METHOD_
	{
		
		MutexLock mutex_lock(events_mutex);
		internal_clipboard = p_text;
	}
	XSetSelectionOwner(x11_display, XA_PRIMARY, windows[MAIN_WINDOW_ID].x11_window, CurrentTime);
	XSetSelectionOwner(x11_display, XInternAtom(x11_display, "CLIPBOARD", 0), windows[MAIN_WINDOW_ID].x11_window, CurrentTime);
}
void DisplayServerX11::clipboard_set_primary(const String &p_text) {