### 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(SHADOW_ATLAS_QUADRANT_SUBDIV_DISABLED);
	ERR_FAIL_INDEX_V(p_quadrant, 4, SHADOW_ATLAS_QUADRANT_SUBDIV_DISABLED);
	return positional_shadow_atlas_quadrant_subdiv[p_quadrant];
}
Ref<InputEvent> Viewport::_make_input_local(const Ref<InputEvent> &ev) {
	if (ev.is_null()) {
		return ev; 
	}
	Transform2D ai = get_final_transform().affine_inverse();
	return ev->xformed_by(ai);
}
Vector2 Viewport::get_mouse_position() const {
	ERR_READ_THREAD_GUARD_V(Vector2());
	if (!is_directly_attached_to_screen()) {
		
		
		return gui.last_mouse_pos;
	} else if (DisplayServer::get_singleton()->has_feature(DisplayServer::FEATURE_MOUSE)) {
		return get_screen_transform_internal(true).affine_inverse().xform(DisplayServer::get_singleton()->mouse_get_position());
	} else {
		
		return get_screen_transform_internal().affine_inverse().xform(Input::get_singleton()->get_mouse_position());
	}
}
void Viewport::warp_mouse(const Vector2 &p_position) {