Flatpak Tooling With Toolbox

I am trying go into flatpak development business and I am currently using Kinoite, so would prefer if the development tooling is not installed to my system. Toolbox usually works fine for sandboxing normal tooling; but, for some reason flatpak commands pass through and actually affect my host system. Should I make a dummy user and switch to it for flatpak development or is there a more elegant solution?