It can be shown, using the Liouville theorem, that a system performing Hamiltonian evolution does not increase its entropy (e.g., see What maximizes entropy?.) BBGKY hierarchy seems to be just an alternative way of describing Hamiltonian evolution, so I expect that it produces the same prediction...
On the other hand, Boltzmann H-theorem does predict entropy increase on the basis of the Boltzmann equation, obtained by truncating BBGKY hierarchy.
The question is essentially: is the H-theorem a consequence of truncating the hierarchy of equations, or is there some difference between the Liouville and BBGKY description of Hamiltonian evolution, which results in entropy increasing (in BBGKY)?