### Godot version

v4.2.dev.custom_build [60f3b7967]

### System information

Debian Linux X11 Xfce

### Issue description

Physics Picking within a `SubViewport` happens with `InputEventMouse` even when mouse events are disabled via `SubViewportContainer.mouse_filter = Control.MOUSE_FILTER_IGNORE`

The problem is that passive hovering still happens in the `SubViewport` with `SubViewportContainer.mouse_filter = Control.MOUSE_FILTER_IGNORE`.

I assume that it is a regression from #78017.

This was initially reported as a side-effect in #79271, which got closed, because the main issue was resolved.



### Steps to reproduce

1. Load and run MRP
2. move mouse over Icon

I would expect, that the `Area2D` receives no `InputEventMouse`, however it gets `_input_event` and also mouse-entered and mouse-exited signals.

### Minimal reproduction project

[IgnorePassiveHover.zip](https://github.com/godotengine/godot/files/12044510/IgnorePassiveHover.zip)

#ifndef _3D_DISABLED
	if (use_xr) {
		if (XRServer::get_singleton() != nullptr) {
			Ref<XRInterface> xr_interface = XRServer::get_singleton()->get_primary_interface();
			if (xr_interface.is_valid() && xr_interface->is_initialized()) {
				Size2 xr_size = xr_interface->get_render_target_size();
				return (Size2i)xr_size;
			}
		}
		return Size2i();
	}
#endif 
	return size;
}
Size2i Viewport::_get_size_2d_override() const {