I have the same issue. Using coax out from Wiim Pro to the Ares ii with the new FPGA firmware installed, I get skips within the first 10 secs of a new track or album, also when using Tidal Connect.
I hope Wiim can do something about this issue; however, I'm not convinced it's a problem on their end. As far as I know (which is not much), the Ares ii is reclocking the spdif signal via the beforementioned buffer. This process used to cause noticeable delays, making the Ares ii unfit for tv, gaming, and so on, where latency is essential. With the recent FPGA firmware update, they fixed this issue, which has now introduced the problem of small skips when introducing a new audio (spdif) signal, at least for many users.
Looking forward to hearing about what Wiim comes up with for possible solutions