In his Logical Foundation of Mathematics and Computational Complexity (2013), Pavel Pudlak invites the readers to ponder about fictitious people whose natural numbers are nonstandard. His exposition is included in Section 6.1, under the subsection Interlude - Life in an Inconsistent World.
He first (implicitly) assumes the Peano Arithmetic $\mathrm{PA}$ is consistent. The theory $\mathrm{PA + \neg Con(PA)}$ is consistent by the Second Incompleteness Theorem, thus having a model $M$. He then urges us to think about a world $\mathcal W$ where the natural numbers are $M$.
He explains what kind of unnerving phenomenon occurs in $\mathcal W$.
[...] Suppose that these people discover one of the proofs of contradiction in $\mathrm{PA}$. Then they would be very frustrated when trying to determine the theory of the natural numbers. On the one hand they would see that the axioms of Peano Arithmetic are satisfied in their natural numbers, on the other hand they would know that the axioms are inconsistent. Since the axioms are true, but one can still derive a contradiction from them, they would conclude that logic fails. [...]
The problem is that I don't quite understand the passage. In particular, it is unclear what logical system the people in $\mathcal W$ use in writing "the proofs of contradiction $\mathrm{PA}$."
I'd be grateful if you could explain the passage more technically and more in detail.