Hello Sev,

The behavior you're describing sounds very abnormal.

Dataset permissions should stay static within the database and not reset with an upgrade, even with any custom modules.

I've tested this by manipulating the study tutorial (https://www.labkey.org/Documentation/Archive/17.2/wiki-page.view?name=setupDemoStudy) and edited the dataset permissions, then did an upgrade of the version of LabKey and the permissions on the datasets did not change.

Have you been able to reproduce this issue on another machine, such as a local computer or development/test server?

When you're doing the upgrade, are you also inadvertently doing any kind of database change? Like restoring the database from an older point?

Regards,

Jon