Permissions/ACL(?) issues after upgrading to 24.10

That notice has been superseded by the fix in 24.10.0.2: TrueNAS SCALE 24.10.0.2 and 24.04.2.5 are Now Available!

As for your initial question, I suspect adding an ACL entry for UID 1000 via the app configuration screen should sort out those permissions issues.