It's none of those, so we at least know it's unusual. No plugins, no preferences, and it's very random, like maybe 10 times a week, assuming I use the player 6-8 hours a day. One day, it happened 3 times in one setting.
The first couple times this happened, I thought the FLAC file was corrupt, so I hit "back" and played it again, but it NEVER skips twice in a row, which makes this tough to debug.
You would know better than I, obviously, but it "seems" like it's a cache or buffer issue, and something is tricking the player. What I believe is that I'm doing something on the PC in my absentmindedness and it's causing the issue. The thing is, this PC has 64GB of RAM, and I don't do anything intense on it, no games or CAD or video, but I concede it's probably me making a condition that manifests as a random FLAC starting over after a few seconds.