Changing Boot Partition

I have an SDD as the primary drive containing Windows 10 and Applications, and an HDD for data. The System Partition exists on the HDD, so I am unable to boot if the HDD is offline. So I want to move it to the SDD. When changing the boot partition from an HDD to an SDD, will the BCD application format the SDD system partition? If yes, will I loose my Windows 10 and other Application installations?