### 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)

ERR_READ_THREAD_GUARD_V(false);
	return is_audio_listener_3d_enabled;
}
void Viewport::_update_audio_listener_3d() {
	if (AudioServer::get_singleton()) {
		AudioServer::get_singleton()->notify_listener_changed();
	}
}
void Viewport::_listener_transform_3d_changed_notify() {
}
void Viewport::_audio_listener_3d_set(AudioListener3D *p_listener) {
	if (audio_listener_3d == p_listener) {
		return;
	}
	audio_listener_3d = p_listener;
	_update_audio_listener_3d();
	_listener_transform_3d_changed_notify();
}
bool Viewport::_audio_listener_3d_add(AudioListener3D *p_listener) {
	audio_listener_3d_set.insert(p_listener);
	return audio_listener_3d_set.size() == 1;
}
void Viewport::_audio_listener_3d_remove(AudioListener3D *p_listener) {