I would guess that in most any case that a failure of the LCC tool is caused by user error. It is important to have a good working knowledge of this tool before needing it on a job. It has never failed to 100% remove lens cast in any of the hundreds of shots I've made with Phase One backs.
it is important to read the Phase One instructions for LCC which can be found in their support section....
http://www.phaseone.com/KBFiles/1557/1/LCCMac.pdfYou should always contact your dealer first when you run into these kind of problems with Phase. Phase One requires your dealer to be the front line in providing you with tech support and know-how. If your dealer is good you should take advantage of this. If they are not helpful, let Phase One and your dealer know, and do your next upgrade through another dealer.
Also, don't believe that you can shoot an image and then used a previously made LCC correction, or that you can make a LCC capture and correction later. Shoot the white plexi for every setup you do. Even small changes in swing, tilt, f-stop, or focus can render the LCC correction you are using invalid.
If you did not make a good capture of the white plexi for the LCC tool, then you are on to Photoshop to fix this image. Try using a Hue/Sat layer and de-saturating the magenta and green, then invert mask, and just paint in the correction where there are problems.