If the partition which is to take over control of the boot is on a different HDD from the current boot partition, you will also need to change your BIOS to put the new drive before the old one in the boot sequence, otherwise the old (untouched) boot files will continue to be in control. This obviously does not apply if the two partitions share a HDD. The switch of the "active" status will do everything needed in that case
Same situation....If I want to move the bootmgr with BCD Backup/Repair and this bootmgr is on a different physical disk (as often happens with a Win7 install if the disk to which I install is not on Sata port0), does EasyBCD find that bootmgr and move it to C:\.