It's perfectly fine to not like Prolog, but I do feel that if you're going to write an article about why you don't like it, you should at least spend some time figuring it out first.
He says of the cut operator "This is necessary for optimization but can lead to invalid programs." Imagine if a programmer new to C++ said the same thing of the "break" keyword. That's how ridiculous it sounds. Yes, cut can be used to prune backtracking and eliminate unneeded work, but that's hardly it's purpose. It leads to "invalid" programs (by which I assume he means, programs that do something other than what he wants) only in cases where you are using it wrong. Cut is no more "necessary for optimization" than break is. It's a control structure that you don't understand
Negation (\+) is confusing, and the author correctly provides examples where its meaning is unintuitive when applied to unbound variables. That's because it's not strictly speaking a negation predicate, but rather a "not provable" predicate. In that light, the examples in the article make perfect sense. Yes, Prolog is a programming language, so the order of terms matter, even if the order wouldn't matter in pure logic.
Look, Prolog is a weird language. It has a learning curve. It's not "just another language" in the Java, C++, Pascal, Python mold. I get it. But this article has the flavor of an impatient newbie getting frustrated because he can't be bothered to read the documentation.