Natural proofs are a certain type of proof of the circuit complexity of boolean conditions. The barrier is that it has been proved that [1] natural proofs cannot be used for P vs NP.
I’m not sure that is a problem here given that as I understand it, natural proofs apply to circuit complexity approaches and they say the whole circuit complexity method has fundamental limitations which they describe thus:
The circuit complexity approach seeks to establish lower bounds by proving that NP problems require super-polynomial circuit sizes. While achieving success for restricted models such as monotone circuits, this approach has faced insurmountable barriers in establishing non-linear lower bounds for general circuits.
So they take an entirely different approach using category theory. It may have a similar limitation as the natural proof barrier (as far as I know), but as they dismiss the whole circuit idea and do something different I wouldn’t say them not mentioning the limitation of a specific type of circuit-based approach is that much of a problem.
[1] assuming certain things which people generally believe to be true