You've run into GTK3's support for smooth-scrolling, which does not rely
on mapping buttons 4/5 as “mouse wheel” buttons. What's happening after
you remapped the buttons is GTK3 is receiving a “scroll down by 12.4
increments” message, and *also* receiving a “the scroll-up button was
pressed” message.
In order to reverse the scroll order you additionally need to reverse
the scroll axis; you can do this with the “xinput” tool by providing a
negative value for the scroll distance.
** Changed in: xserver-xorg-input-synaptics (Ubuntu)
Status: Confirmed => Invalid
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which is subscribed to xserver-xorg-input-synaptics in Ubuntu.
https://bugs.launchpad.net/bugs/968536
Title:
Natural Scrolling broken with software-center in 12.04
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https://bugs.launchpad.net/ubuntu/+source/xserver-xorg-input-synaptics/+bug/968536/+subscriptions
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