Spin precession in compact binaries is intricately tuned to the multipole structure of the underlying bodies. For black holes, violations of the no-hair theorems induced by modifications to general relativity correct the precession dynamics, which in turn imprints onto the amplitude and phase modulations of the gravitational waves emitted by the binary. Recently, the spin precession equations were derived up to second order in spin for dynamical Chern-Simons (dCS) gravity, a parity-violating modified theory of gravity. We here solve these equations and construct, for the first time, analytic expressions for the time- and frequency-domain gravitational waves emitted in the quasicircular inspiral of spin-precessing black hole binaries in a modified theory of gravity using the post-Newtonian approximation. Working within the small coupling approximation and using multiple scale analysis, we show that the corrections to the nutation phase enter at relative first post-Newtonian (1PN) order, and the corrections to the precession angle and Thomas phase enter at relative 0PN order. Making use of the stationary phase approximation and shifted uniform asymptotics, we find that the Fourier phase of the waveform is characterized by three modifications: two due to the backreaction of the precession dynamics onto the spin-orbit and spin-spin couplings that enter at 1.5PN and 2PN orders, and a 2PN modification due to the emission of dipole radiation. We also find that backreaction of the precession dynamics forces the dCS corrections to the Fourier amplitude to enter at 0PN order, as opposed to 2PN order, as expected for spin-aligned binaries. Our work lays the first foundational stones to build an inspiral-merger-ringdown phenomenological model for spin-precessing binaries in a modified theory of gravity.