When you tell Windows specifically not to reboot, and it reboots, losing ~2TB of data transfer and corrupting all files on the recipient drive.
Meaning you need to reformat the drive, and transfer the 3TB of files that take over 24 hours to transfer again.
M$ is really lucky I keep a backup of my backup...
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Shouldn't have to, and shouldn't corrupt... ntfs has journaling and transactions
As for data run a checkdisk on partition.
if you have access to system with original data you could also make a torrent of your original data and then load torrent on destination pc and choose to save file where you downloaded before.
The torrent client will hash check every file and download only the missing or corrupted segments. Or at very least it will tell you which files have errors and you can delete those and then use ftp to get those files only.