### 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)

bool is_tooltip_shown = false;
				if (gui.tooltip_popup) {
					if (gui.tooltip_control) {
						String tooltip = _gui_get_tooltip(over, gui.tooltip_control->get_global_transform().xform_inv(mpos));
						tooltip = tooltip.strip_edges();
						if (tooltip.length() == 0) {
							_gui_cancel_tooltip();
						} else if (gui.tooltip_label) {
							if (tooltip == gui.tooltip_label->get_text()) {
								is_tooltip_shown = true;
							}
						} else {
							is_tooltip_shown = true; 
						}
					} else {
						_gui_cancel_tooltip();
					}
				}
				if (!is_tooltip_shown && over->can_process()) {
					if (gui.tooltip_timer.is_valid()) {
						gui.tooltip_timer->release_connections();
						gui.tooltip_timer = Ref<SceneTreeTimer>();
					}
					gui.tooltip_control = over;
					gui.tooltip_pos = over->get_screen_transform().xform(pos);
					gui.tooltip_timer = get_tree()->create_timer(gui.tooltip_delay);
					gui.tooltip_timer->set_ignore_time_scale(true);
					gui.tooltip_timer->connect("timeout", callable_mp(this, &Viewport::_gui_show_tooltip));
				}
			}