### 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
XineramaScreenInfo *xsi = XineramaQueryScreens(x11_display, &count);
		
		if (p_screen < count) {
			rect.position.x = xsi[p_screen].x_org;
			rect.position.y = xsi[p_screen].y_org;
			rect.size.width = xsi[p_screen].width;
			rect.size.height = xsi[p_screen].height;
		} else {
			ERR_PRINT("Invalid screen index: " + itos(p_screen) + "(count: " + itos(count) + ").");
		}
		if (xsi) {
			XFree(xsi);
		}
	} else {
		int count = XScreenCount(x11_display);
		if (p_screen < count) {
			Window root = XRootWindow(x11_display, p_screen);
			XWindowAttributes xwa;
			XGetWindowAttributes(x11_display, root, &xwa);
			rect.position.x = xwa.x;
			rect.position.y = xwa.y;
			rect.size.width = xwa.width;
			rect.size.height = xwa.height;
		} else {
			ERR_PRINT("Invalid screen index: " + itos(p_screen) + "(count: " + itos(count) + ").");
		}
	}
	return rect;
}
Point2i DisplayServerX11::screen_get_position(int p_screen) const {