### 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)

for (const ObjectID &id : gui.canvas_parents_with_dirty_order) {
		Object *obj = ObjectDB::get_instance(id);
		if (!obj) {
			continue; 
		}
		Node *n = static_cast<Node *>(obj);
		for (int i = 0; i < n->get_child_count(); i++) {
			Node *c = n->get_child(i);
			CanvasItem *ci = Object::cast_to<CanvasItem>(c);
			if (ci) {
				ci->update_draw_order();
				continue;
			}
			CanvasLayer *cl = Object::cast_to<CanvasLayer>(c);
			if (cl) {
				cl->update_draw_order();
			}
		}
	}
	gui.canvas_parents_with_dirty_order.clear();
}
void Viewport::_sub_window_update_order() {