Dual Booting Cloned Partition - Incorrect drive letter

I have a single drive partitioned into 2. I installed windows 8.1 onto partition C. I cloned partition C onto partition D using EaseUS Backup. I used easyBCD to add a boot entry for partition D. I know if you do two separate installtions through the installer, windows makes the drive letter it boots from into drive letter C. This retains the proper path links and ensures...