Does it happen with your much smaller ships? Its probably just your ship flopping around. Especially, with ships that big. The whole thing will flop around and that in turn, will make the markers on the navball jump around, and make orbit lines and maneuver nodes move all over the place. Sometimes quite a bit. 23.5 helped a ton with wobble and floppy issues, but struts might help. Struts, struts, struts. There are several old posts about where to put them and why.