We prove an effective form of Wilkie's conjecture in the structure generated by restricted sub-Pfaffian functions:

the number of rational points of height $H$ lying in the transcendental part of such a set grows no faster than some power

of $logH$ . Our bounds depend only on the Pfaffian complexity of the sets involved. As a corollary we deduce

Wilkie's original conjecture for $\mathbb{R}_{\exp}$ in full generality.