Hi, as you figured out, clipping is applied in the last step of the RailClone workflow.
But i'm afraid there is not a simple way to change that, because clipping depends of the size and position of each segment. I mean, when segments are evaluated it's not possible to use a conditional rule based on if segment is cliiped or not, because RailClone doesn't know what will be the resulting segment... basically it's a recursive dependence issue.