@eddief Why would Specialized change the distance between the charge port and seat tube bottle mounts? Seems the logical design would be keep them at the same distance, thus allowing more room above the mounts on larger frames?
@Burning Matches Rotate the RE in the bottle mount so the cable is closer. With it in the position you choose the cable will be stretched further than if the RE is rotated clockwise to the other end of the rear notch. That should get you the couple of millimeters you desire.