So firstly there is no master clock to be recovered from the SPDIF - but I digitally convert the SPDIF format into a parallel I2s like format - that is word clock, data left and data right. The word clock is extracted directly from the pre-amble, this word clock extraction only works on the fixed pre-amble so has no possibility of data related jitter, unlike using a conventional PLL based clock extraction, which relies on all transitions, pre-amble and data.
The extracted word clock then is fed to the DPLL. I should not call it a DPLL, (DFLL is more appropriate term) as phase locking is only applied initially; once initial lock is obtained, it works upon frequency only and is frequency locked to the incoming word clock - so the phase (and hence jitter) of the incoming word clock has zero influence on the generated word clock, which is generated from the local low jitter 104.25MHz fixed frequency oscillator. The DPLL ensures that the generated word clock is frequency locked to the incoming word clock, and it has a time constant of many seconds.
Meanwhile the data is fed into a micro buffer, and the data is read out from the buffer via the generated word clock, which is synchronous to the 104.25MHz low jitter fixed clock.
But I can talk as much technicalities as I like - ultimately it does not matter. The fact is that using my MSI lap-top I got identical sound quality from using optical SPDIF as using USB with Dave. USB of course is asynchronous, the data is fed to the DAC with an integer count of the 104.25 MHz low jitter clock, so no clock generation is done at all, nor any conversions from SPDIF to parallel data either. So I know the DPLL system is innately transparent. This does not mean that all USB sources sound the same as optical, as the galvanic isolation on the USB is not perfect - some RF noise can leak into the DACs ground plane from noisy USB sources via the 2pF isolation capacitance on the USB interface. But you can treat the optical input as the SQ reference, with USB either sounding identical to optical or worse, depending upon the cables and the source and how much RF noise is fed into the DAC.