No, rebuilding BCD does not delete files. Bootrec.exe, fixmbr bootrec.exe, fixboot and bootrec.exe help us to repair the boot files, which will not affect any of the personal files and folder.

If the above fix did not help you, you have to remove the hidden, system, and read-only attributes from the BCD file and then rebuild the BCD file again. Go through the following instructions.