As a solo entrepreneur, if something enables me to execute faster, I'll gladly use it. Articles like this only remind me to never (again) hire expensive, pedantic, over-principled and cynical engineers.
A stupid example off the top of my head: I use VSCode and often I'll use the integrated git commit feature. But if need to bisect, rebase, merge, or edit a commit, I will just use the CLI. I don't feel like using the commit GUI makes me worse at using git.
All in all, I think the author thinks that familiarity with one tool makes people worse at another similar tool, but I don't think that's the necessarily the case. At worst, memory might fade if the other tool isn't used, but that's fine, it's clearly not used often. As an analogy: if I don't speak German every day, I don't need to be fluent in German either.
But you're right, tools that make short work of ridiculous incantations, 100% good.
We don't sit around trying to re-write arithmetic, but apparently not knowing how to do git pull --rebase is a crime to these smart folks, who don't seem to realize they know very little about getting sh!t done.
The cynical and pedantic engineers however, do excellent work, and their software never breaks. It takes longer, you pay a bit more, but it is worth every cent.
And using an IDE that enables you to work faster, doesn't mean you can't learn basic shell commands. Or learn the fundamentals behind the technology you use. Just like pedantic engineers are no guarantee for code that doesn't break.