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Clone Required Reboot Issues

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I have 2 HDD's in my pc disk 1 my main disk with about a terabyte worth of stuff on it I want to clone. Disk 2 a 3 tb HDD is formated and partitioned but when I go to clone and I choose source disk 1 and target disk 2 there is no probelm. But when I hit finish and it checks some stuff then says reboot required I hit restart and it brings up windows are you sure screen and if I leave it, it does not restart and will eventually close out and make me redo the selection of both disks. But if I hit restart anyway it will restart and start to reboot get off the hit F2 for bios screen and sometimes it will say arconis in top left for a second and disapper but other times at the F2 screen it will say something about a kernal and editing a line of code by pressing E. At this point ethier way it will black screen and I have left it for 20 or so minuties with no avail I just cant seem to get it to pass the reboot. I have tried running true image as admin with no luck and made sure scure boot was off so any help would be great. 

I heard that moving the target disk, Disk 2 in my case to the sata spot on my mobo that disk 1 is currently at once i clone or before. not sure if this matters. Also I formatted the new drive and tried to clone onto it and the main partition was deleted so I have to reformat the new partition again for some reason unsure what would cause this or if the drive has a problem. There is two or more partitions on the new drive/disk 2 when u go to close it says if I am ok with deleting which is fine as long as the clone works should I change around the partitions to fix the problem? 

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I highly recommend that you perform your clone while booted from the rescue CD/USB drive. Rebooting from within windows is fraught with problems. TI rewrites the boot record and is not always sucessful in restoring the proper windows boot code. It is not necessary to format and partition the new drive. Cloning will over write everything on the new drive with the contents of the original drive.

Agree with thomasjk.  

My thoughts on clone vs backup/restore:  https://forum.acronis.com/forum/126072#comment-391792

My recommendations (as well as most MVP's in the forum) for properly cloning + be advised of clone limitations and shortfalls:  https://forum.acronis.com/forum/125166#comment-387534

Alright so since it sounds like cloning is not the best idea I have decided to create a bootable media on a USB, I watched a few of the videos you have suggeted but I am somewhow still a little lost. So if I create a entire pc backup to the new drive all I have to do is boot up on the USB with the old drive disconnected and restore the backup on the new drive it will be similar to a clone. Also getting to the bootable media on the USB is as simple as going into in windows and running the bootmenu.exe right. 

You can't save your backup on the new drive and then restore to that same drive. Store your backup on another drive and then restore it to your new drive.

1) What ThosasJK says is correct - backups should be stored to a neutral location.. another drive, a network share, etc.

2) No, about the recovery media.  You create the rescue media and you power off the computer.  You boot the computer and you use your one time boot menu or boot override menu and you pick the recovery media as your boot option.  You then boot the recovery media and it loads its own temporary operating system into memory (does not do anything to your hard drive - it's called a RAMDISK - same principal as taking a Windows install disc and booting into it to start installing Windows).  

3) once booted into your recovery media, then navigate to your previously created backup image and pick it.  Tell it to restore to the new disc and let it do it's thing.  When it's done, power down, unplug the old drive and the recovery media, power up and go into the bios and make sure the newly recovered drive is the first boot option (the bios may have picked somethign else like the CD rom or another drive to try if there are others still connected).  Once that's verifeid, then boot up the system and you should be good to go.

NOTE:  how you boot your recovery media makes a difference if your bios is capable of booting legacy mode and UEFI mode.  Take a look at the screenshots in this thread...

https://forum.acronis.com/forum/121829#comment-378318