It’s not an option in the app’s settings, I think it’s set by the manjaro-settings package (disappeared when I uninstalled it).
It’s in the GNOME settings. As far as I know, this does not come from any Manjaro package.
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Not in the app settings
After sudo pacman -R manjaro-gnome-settings manjaro-gnome-extension-settings it disappears right away
Maybe it’s a hidden setting? I doubt it’s extensions since none of the installed do this.
I did not say it was in the app settings. I said it would be in the GNOME settings. 
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In my relatively recent Gnome installation, the terminal app is kgx.
I think it is meant to be rather minimalistic and it doesn’t have the option.
There is still the “old” terminal gnome-terminal
and ptyxis and many others.
You may need to install them first - in my minimal install, kgx is the only one present.
When your terminal app is gnome-terminal, for instance, the settings might be accessible via the gnome settings or via dconf-editor.
For kgx, there are none available beyond what you saw.
Figured it out
gsettings set org.gnome.Console transparency true
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