I think an important bit of context here is that computers are very, very good at speculative happy-path execution. The examples in the article seem gloomy: how could a JIT possibly do all the checks to make sure the arguments aren’t funky before adding them together, in a way that’s meaningfully better than just running the interpreter? But in practice, a JIT can create code that does these checks, and modern proces…
Most of the time it doesn't matter, most high-throughput python code just invokes C/C++ where these concerns are not as big of a problem. Most JS code just invokes C/C++ browser DOM objects. As long as the hot-path is not in those languages you are not at such high risk of "innocent change tanked performance"
Even server-side most JS/Python/Ruby code is just simple HTTP stack handlers and invoking databases and shuffling data around. And often large part of the process of handling a request (encoding JSON/XML/etc, parsing HTTP messages, etc) can be written in lower-level languages.