Sorry to post my problems in your thread but it seems relevant, and I didn't want to start a new one just for similar issues.
I have a Cinesatr 6, wkm running Hobbywing Pentium 40a ESC's.
It flies great in manual but develops constant small wobble throughout the whole craft whenever I change to atti or gps mode. It affects the video so much that I' am forced to use manual mode as my only option.
Could be one or all of the following, gain settings, prop size, ESC firmware. My CS6 flies nicely in both ATTI and GPS mode, I'm using AXI 2814-22 motors, Graupner 11 x5 props, DYS 30A ESCs with FastPWM firmware, and gain settings of 220 on basic pitch and roll with ATTI pitch and roll TX adjustable from 40% to 110%. With this setup I can get video smooth enough to not need any post process stabilization while flying in ATTI mode.
I've seen the wobble you're referring to and it took a lot of trial end error to eliminate it, the end result being the setup I'm currently using. I just thought of one other thing that can contribute to the wobble, the Z axis measurement used in the Assistant software has to be within a CM +/- of the actual CoG for the axis. The method I've found most effective to measure the CoG on Z axis, take a piece of wire or heavy twine and loop it through one of the outer openings on the lower frame plate. With the CS setup as though you were about to fly it, battery(s) and camera in place, lift it by the wire and note if the center plates are vertical or angled to the right or left. If they're perfectly vertical the CoG for the Z axis is where the wire is, if it's angled so that the lowest part of the centerplate is to the left of vertical it means the CoG is also towards the left. Move the wire to the left and see if the centerplates are vertical there, if it now has the bottom of the centerplate right of vertical then the CoG would be somewhere in between the two points the wire was attached at. If you have the patience and can find appropriate places to hang the frame from you can find the exact Z axis CoG by moving the wire the frame is hanging from until you find the point where the centerplates are perfectly vertical, measure from that point to the center of the side of the IMU and enter the number in the Assistant software.
In your case it would help to know what gain settings you currently have as well as the takeoff weight and what the rest of your setup is. The WKM like to have heavy disk loading on the props, it seems to fly best with the smallest props that will get the job done, a lot of stability problems people have had were solved by swapping to a smaller prop and doing some gain adjustments.
Ken