Tom, I made the conversion over the summer from CineWave to Kona 2.
I did have to resurrect several CineWave captured projects thru the Kona 2. Although the AJAYUV codec is supposed to be CineWave friendly, I had inconsistent results. I most cases I just re-rendered the timeline to the Apple 10 bit codec with excellent results.
In one case, where the Kona 2 timeline had a multi-layered video effect, I got some video artifacts using the 10 bit codec after rendering. I re-set the video processing tab (Sequence settings) to an 8 bit render rather than 10 bit. (Remember, CineWave was an 8 bit codec, which is how my original footage had been captured) and this took, care of the artifacting.
All in all it was a pretty easy transition. Uninstalled the Cinewave software and card, install the Kona 2 card and software and away I went.
Good Luck.