### 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
Atom actual_type = None;
	int actual_format = 0;
	unsigned long nitems = 0;
	unsigned long bytes_after = 0;
	unsigned char *ret = nullptr;
	
	if (p_property != None) {
		int read_bytes = 1024;
		do {
			if (ret != nullptr) {
				XFree(ret);
			}
			XGetWindowProperty(p_display, p_window, p_property, 0, read_bytes, False, AnyPropertyType,
					&actual_type, &actual_format, &nitems, &bytes_after,
					&ret);
			read_bytes *= 2;
		} while (bytes_after != 0);
	}
	Property p = { ret, actual_format, (int)nitems, actual_type };
	return p;
}
static Atom pick_target_from_list(Display *p_display, const Atom *p_list, int p_count) {