Thank you all for the reports on this issue, the information has been vital for working out a solution.
The core of the issue seems to be tied to having a character whose quest state pre-patch was at the “Enter the Sanctum Bastille” objective or further in the “Ruined Temple” quest, yet did not have access to the new versions of the Temple of Eterra zones beyond the Lotus Halls via waypoint or otherwise.
We have created a failsafe such that being in the Lotus Halls with the “Enter the Sanctum Bastille” objective either active or completed will automatically open access to the next zone and register the new events in the Lotus Halls as completed. This failsafe is planned to be included in an upcoming hotfix.
We appreciate your patience as always and appreciate the finding and reporting of issues like this. Thank you.