Description of problem: After using gnome-software you can not see your package transactions (installation, removal, update, …) in dnf's history database. This renders `dnf history` pretty unreliable and `dnf history userinstalled` can't be used any more to get a kickstart file. Version-Release number of selected component (if applicable): dnf-1.1.3-1.fc23.noarch gnome-software-3.18.2-2.fc23.x86_64
AFAIK the plan here is to make both DNF and gnome-software use libhif and have libhif write to the shared database.
Similar story when a package was installed via /usr/libexec/pk-command-not-found (part of PackageKit-command-not-found) then it also isn't listed in the output of `dnf history userinstalled`. (cf. #1284194)
*** This bug has been marked as a duplicate of bug 1259865 ***