i3-above-all

It allows you to open your scratchpad over application in fullscreen. Solves this issue.

Build

make

Install

sudo make install

Usage

above_all $width $height $win_id

in i3wm config

for_window [ class="super_app" ] move scratchpad
bindsym $mod+space exec pgrep -f 'above_all' && killall above_all || above_all 1200 800 $(xdotool search --class super_app)

by this you can toggle your scratchpad with $mod+space over application you are running in fullscreen.