Ah crap, a guitarist......
Just kidding. You know how it goes.
What is cool is that what you want to do is supported by MyDMX. You can make an FX and save it to disk. In my case, I am doing exactly what you were:
I made a "patch" that is circles. I made another patch that is "circles, OUT of phase" and that would be one going clockwise and the other going counterclockwise. Very critical you look at the 3D Visualizer to feel comfortable this is being done properly. I also have another one where they are maybe 90-degrees out of phase and rotating inwards. Then I simply recall the FX, drop it into a new scene, then change the colors. Fairly simple.
The rest of the time, keep your fixtures non-inverted. Just program what you want them, and you'll be fine. It's a tiny bit extra work up front, but if you di it this way, it won't seem so bad later on when and if you need to make changes.