Do the sequences run fine if you play the (output to lights) via xLights?
I'm suspecting a possible overlap somewhere. I've come across this with updating sequences to the later versions of xLights and redoing my outputs with the new methods, only to find I missed an area or to where the universes/channels overlapped, causing this.
I had one single pixel that somehow got connected with another model, causing this strange issue. Double, triple check all your channels, use the overlap checkbox, and/or click on each model and ensure nothing else is lighting up on your screen/other models. When you make changes in xLights, sometimes you have to be sure all links have been changed accordingly.
The puzzling part is that you say other sequences are fine. Maybe a change happened in xLights after those were already rendered, causing the 3 to have been rendered with the wrong info? That's what I am thinking since you stated the newest sequences are having issues?
-Cybie