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Suppose it does become a thing, what then? We end up with an internet which is heavily optimised for bots (arguably it already is to an extent) and unusable for humans?As opposed to the Web we now have, which is heavily optimized for... wasting human life.
What you're asking for, what "large companies such as CloudFlare have spent millions on", is verifying that on the other end of the connection is a web browser, and behind that web browser there is a human being that's being made to needlessly suffer and waste their limited lifespans, as they tediously work their way through the UI maze like a good little lab rat, watching ads at every turn of the corridor, while being constantly surveilled.
Or do you believe there is some other reason why you should care about whether you're interacting with a "human" (really: an user agent called "web browser") vs. "not human" (really: any other user agent)?
The relationship between the commercial web and its users is antagonistic - businesses make money through friction, by making it more difficult for users to accomplish their goals. That's why we never got the era of APIs and web automation for users. That's why we're dealing with tons of bespoke shitty SPAs instead of consistent interfaces - because no store wants to make it easy for you to comparison-shop, or skip their upsells, or efficiently search through the stock; no news service wants you to skip ads or make focused searches, etc.
As users, we've lost the battle for APIs and continue to be forced to use the "manual web" (with active cooperation of the browser vendors, too). MCP feels promising because we're in a moment in time, however brief, where LLMs can navigate the "manual web" for us, shielding us from all the malicious bullshit (ads, marketing copy, funneling, call to actions, confusing design, dark patterns, less dark patterns, the fact that your store is a bloated SPA instead of an endpoint for a generic database querying frontend, and so on) while remaining mostly impervious to it. This will not last long - the vendors de-facto ruling the web have every reason to shut it down (or turn it around and use LLMs against us). But for now, it works.
Adversarial interoperability is the name of the game. LLMs, especially combined with tool use (and right tools), make it much easier and much more accessible than ever before. For however brief a moment.