### 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 (gui.subwindow_drag != SUB_WINDOW_DRAG_DISABLED) {
		ERR_FAIL_COND_V(gui.currently_dragged_subwindow == nullptr, false);
		Ref<InputEventMouseButton> mb = p_event;
		if (mb.is_valid() && !mb->is_pressed() && mb->get_button_index() == MouseButton::LEFT) {
			if (gui.subwindow_drag == SUB_WINDOW_DRAG_CLOSE) {
				if (gui.subwindow_drag_close_rect.has_point(mb->get_position())) {
					
					gui.currently_dragged_subwindow->_event_callback(DisplayServer::WINDOW_EVENT_CLOSE_REQUEST);
				}
			}
			gui.subwindow_drag = SUB_WINDOW_DRAG_DISABLED;
			if (gui.currently_dragged_subwindow != nullptr) { 
				_sub_window_update(gui.currently_dragged_subwindow);
				gui.currently_dragged_subwindow = nullptr;
			}
		}
		Ref<InputEventMouseMotion> mm = p_event;