Eneco (or Quby) released toon firmware 5.13.9. They state that there are no changes except of 'auto update'.
In fact there are a few changes internally, related to a future where the VPN isn't used anymore and where the Toon will connect (probably) to a cloud service center (instead of over the VPN).
But for now this feature isn't enabled yet in 5.13.9.
Also for the Toon2 in 5.13.9 there is support for the CO2 and particale sensor. But also this feature isn't enabled yet.
But I haven't found any evidence for a auto-update feature. As I understand this auto-update will be enabled in their update script and this is not related to the firmware 5.13.9. For now this auto-update is only enabled for TST and ACC toon's only in the eneco official update script, no production toons. If auto-update will be enabled, this will never work on rooted toons as long as the VPN is disabled. Maybe they will enabled download updates over the internet also in the future (instead of VPN). But at that time we will probably have blocked that also

Updating your rooted toon, with the TSC update script or using the 'check update button' in the TSC menu, is now supported to 5.13.9. There is however, for now, no reason to update.