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I found the reason and sorry for late posting.

The issue was, someone created FDA connection from a different environment to this environment. When the nightly cleanup workflow runs, it deletes the table for the list. Here is more details.

We had UAT environment connecting to SIT via FDA (probably someone did some test, god knows when, especially when the environments are 7+ yesrs old). So when UAT cleanup is running, it is connecting to SIT via FDA. That connection is deleting the list related table. Similarly all other lower environments are interconnected via some other environment's FDA and it was happening to all lower environments.

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