Your report describe several issues, it's normal that samba or ubuntu-
retricted-extras are not listed. Krita being missing is a bug in
calligra and doesn't only impact gnome-software, see bug #1576827 , muon
is likely in a similar situation
** Changed in: gnome-software (Ubuntu)
Status: New => Opinion
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https://bugs.launchpad.net/bugs/1579415
Title:
Ubuntu Software Center does not display third party apps or all
installed apps
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