Interesting - even if you turn the knob less than fully counter clockwise you don’t get a noticeable change? That is pretty odd - I’d even suspect it could be an issue with the double knot’s outputs having some DC offset, but you say that it works as expected with the Rise CV so I’m not sure. I’d ask Will his thoughts on this behavior (not sure if he’s watching the thread or not).
And yeah, getting perfect tracking is gonna be tricky with such a wide ranging control - I love microtonal music and unusual EDOs though, so it doesn’t bother me much - try exploring outside the traditional 12-notes-per-octave standard and you’ll be constantly surprised at what you find! 
Speaking of tuning, what do you all have your Mosstone’s scale tuned to?
I have mine tuned to a tuning called “8EDT”, aka “8 equal divisions of the tritave”. Instead of being octave-repeating as most common scales are, this scale repeats every Tritave (aka Perfect Twelfth), and divides this interval into 8 equal parts. It’s one of my favorite microtonal scales, though technically it’d be considered “macrotonal” since the smallest intervals are larger than a semitone! Here is a little melody I made in 8EDT on my computer so you can hear what it sounds like:
Speaking of, do you think people would be interested if I made a microtonal music thread on lines? It’s a big interest of mine and could be fun! 
EDIT: Btw, if the mosstone does have a stereo output, does it matter if I’m using a mono cable with it? I haven’t heard any issues with the sound quality, and I don’t have a spare stereo cable to spare 