Timbre change with different sample rate

So when using a patch that includes a Tides and a Warps module, changing the sample rate from 48khz to 96khz, the resulting timbre changes. Knowing that the Audible Instruments modules are clocked at the same rate as their hardware counterparts, I am wondering why that is.

Also if I want to use VCV Rack at 48khz, how would that affect the Warps module that is originally running at 96khz?