### 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.key_focus->can_process()) {
				gui.key_focus->_call_gui_input(p_event);
			}
			if (gui.key_event_accepted) {
				set_input_as_handled();
				return;
			}
		}
		Control *from = gui.key_focus ? gui.key_focus : nullptr;
		if (from && p_event->is_pressed()) {
			Control *next = nullptr;
			Ref<InputEventJoypadMotion> joypadmotion_event = p_event;
			if (joypadmotion_event.is_valid()) {
				Input *input = Input::get_singleton();
				if (p_event->is_action_pressed("ui_focus_next") && input->is_action_just_pressed("ui_focus_next")) {
					next = from->find_next_valid_focus();
				}
				if (p_event->is_action_pressed("ui_focus_prev") && input->is_action_just_pressed("ui_focus_prev")) {
					next = from->find_prev_valid_focus();
				}
				if (p_event->is_action_pressed("ui_up") && input->is_action_just_pressed("ui_up")) {
					next = from->_get_focus_neighbor(SIDE_TOP);
				}
				if (p_event->is_action_pressed("ui_left") && input->is_action_just_pressed("ui_left")) {
					next = from->_get_focus_neighbor(SIDE_LEFT);
				}
				if (p_event->is_action_pressed("ui_right") && input->is_action_just_pressed("ui_right")) {
					next = from->_get_focus_neighbor(SIDE_RIGHT);
				}
				if (p_event->is_action_pressed("ui_down") && input->is_action_just_pressed("ui_down")) {