### 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 (audio_listener_2d == p_listener) {
		return;
	} else if (audio_listener_2d) {
		audio_listener_2d->clear_current();
	}
	audio_listener_2d = p_listener;
}
void Viewport::_audio_listener_2d_remove(AudioListener2D *p_listener) {
	if (audio_listener_2d == p_listener) {
		audio_listener_2d = nullptr;
	}
}
void Viewport::_canvas_layer_add(CanvasLayer *p_canvas_layer) {
	canvas_layers.insert(p_canvas_layer);
}
void Viewport::_canvas_layer_remove(CanvasLayer *p_canvas_layer) {
	canvas_layers.erase(p_canvas_layer);
}
void Viewport::set_transparent_background(bool p_enable) {
	ERR_MAIN_THREAD_GUARD;
	transparent_bg = p_enable;
	RS::get_singleton()->viewport_set_transparent_background(viewport, p_enable);
}
bool Viewport::has_transparent_background() const {
	ERR_READ_THREAD_GUARD_V(false);
	return transparent_bg;
}
void Viewport::set_world_2d(const Ref<World2D> &p_world_2d) {