I have been updating to the Sepulcher of Set in my compound which had adequate space and the temple disappeared along with all of the antidotes that was created for the manifestations of zeal. Now in the area spawns stones which I am able to walk through and not mine.
Welcome to our community and apologies for the frustrating issue.
Please make sure to build the temple in a place that has nothing around it that would block it, be it walls, placeables or elements of the terrain. People usually build it on top of foundations at a certain height to avoid possible issues.
Our team is aware that sometimes altars can present issues when upgrading them and they’re looking into it.
Thanks for your feedback.