### 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)

ERR_READ_THREAD_GUARD_V(false);
	if (!handle_input_locally) {
		ERR_FAIL_COND_V(!is_inside_tree(), false);
		const Viewport *vp = this;
		while (true) {
			if (Object::cast_to<Window>(vp)) {
				break;
			}
			if (!vp->get_parent()) {
				break;
			}
			vp = vp->get_parent()->get_viewport();
		}
		if (vp != this) {
			return vp->is_input_handled();
		}
	}
	return local_input_handled;
}
void Viewport::set_handle_input_locally(bool p_enable) {
	ERR_MAIN_THREAD_GUARD;
	handle_input_locally = p_enable;
}
bool Viewport::is_handling_input_locally() const {