This is the mindset that lead to people not realizing the impact of shellshock. If your webservice shells out to use any other tools (imagemagick for instance) the shell is now part of your app.
Which then begs the question why the author chose AGPL over regular GPL, if it's unlikely to ever apply in practice. What was the author worried about?
Meanwhile, it's much easier for a BigCo to have a blanket policy for a license which has incredibly high theoretical dangers and little clarity around its scope. And I don't blame them.