Hi Daniel,
the default pinentry is setup via the alternatives mechanism, i.e.
system wide. Installing pinentry-qt4 switched the default pinentry from
gnome3 to qt4, since pinentry-qt4 has a higher priority.
This is definitely not something we want inside the GNOME desktop.
Please provide a mechanism in gnupg-agent to select the default pinentry
program on a per desktop basis.
The same problem is valid for other desktop environments, e.g. Xfce
might prefer the gtk2 pinentry program and simply having pinentry-gnome3
installed shouldn't break that.
Regards,
Michael