I maybe have found something in system-tools-backend which could explain
this weird bug.

system-tools-backends looks at the line number instead of the group name to see 
if a group have been deleted/added/modified.
Just look at the set function in 
/usr/share/system-tools-backends-2.0/scripts/Users/Groups.pm

I won't go into details but this behaviour works correctly only the
first time.

If you launch users-admin, delete a group and then create a new user
(with a new group), system-tools-backends will try to delete another
group and will try to rename several groups (which fail because the
target group name already exists).

/usr/share/system-tools-backends-2.0/scripts/Users/Users.pm seems to
behave the same.

I am not sure this is the cause of this bug, I still don't see in what
conditions it could trigger this bug.

-- 
Adding a user to a group modifies other users' groups and passwords
https://bugs.launchpad.net/bugs/26338
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