We add "(as superuser)" if the process which owns the window claims to
be owned by user 0, i.e. root.

Please reproduce the problem, then do

$ xprop|grep _NET_WM_PID

and click on the window with the problem. xprop will say something like


And then do

marnanel@grantham:~$ ps aunx|grep 1586

(with 1586 replaced by whatever xprop told you). This should say
something like

1000  1586  0.0  1.2 188156 52000 ?        Ssl  Mar22  11:41 /usr/lib

and then tell us what it says.

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  App title bar says "as superuser", but that's not the case

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