### 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)

if (co && co->is_inside_tree()) {
				if (p_clean_all_frames && p_paused_only && co->can_process()) {
					continue;
				}
				co->_mouse_shape_exit(E.key.second);
			}
		}
		shapes_to_erase.push_back(E.key);
	}
	while (shapes_to_erase.size()) {
		physics_2d_shape_mouseover.erase(shapes_to_erase.front()->get());
		shapes_to_erase.pop_front();
	}
}
void Viewport::_gui_grab_click_focus(Control *p_control) {
	gui.mouse_click_grabber = p_control;
	call_deferred(SNAME("_post_gui_grab_click_focus"));
}
void Viewport::_post_gui_grab_click_focus() {
	Control *focus_grabber = gui.mouse_click_grabber;
	if (!focus_grabber) {
		
		return;
	}
	gui.mouse_click_grabber = nullptr;
	if (gui.mouse_focus) {
		if (gui.mouse_focus == focus_grabber) {
			return;
		}
		BitField<MouseButtonMask> mask = gui.mouse_focus_mask;