I use GSE Smart TV, and during the 4 years I have used it this has happened maybe 3-4 times. I think, and I'm definitely not sure if your storage is full or near full, some of this will be cached, as your configuration, deleted for the space.
It also happens to me with Kodi once in a while. It's strange that I have two ATV's, and on one of them I often use Kodi and on the other almost never, and that's the code I almost never use that usually returns to a new installation.
So, would you say your storage is full or near full? If so, go to Settings> Apps> Manage Storage (I think that's where it is) and delete the largest app you use at least, and see if it stops deleting your iPlay configuration.