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Cloning destination greyed out with Seagate DiskWizard

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I am currently trying to upgrade the hard drive in my Sony Vaio E series laptop (running Windows 7 64-bit) from a Seagate/Samsung 500GB hdd (ST1000LM012 HN-M500MBB) to a 1TB hdd of the same brand (ST1000LM024 HN-M101MBB) but have had a few problems in cloning everything across. I have the original 500GB hard drive in an external enclosure, the new 1TB hard drive in the laptop, and am running a bootable version of SeagateWizard from a USB stick.

Problem 1 is that when I select the old drive as the clone source it tells me that 'some partitions contain errors and can only be imaged sector-by-sector.' And asks if I want to continue.
-I have run chkdsk C: /r sucessfully (I think) but didn't help.
-Do I need to run this for the D drive as well?

Problem number 2 is that if I ignore problem number 1 and continue, the 1TB destination drive is greyed out
-I have already run it through the 'add a new hard disk' process to make it ready for cloning (set up as MBR, but created no partitions)
-Is this related to problem 1?
-Could it be due to the old hard drive using 512bytes/sector and the new one using 4k bytes/sector? I thought that the program could solve this (including alignment) automatically but I may be wrong.

I've attached some photos for clarification, and have included all the information i can think of. I would really appreciate any help you can give me with this.

Harley

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imag0317.jpg 1.03 MB
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imag0320.jpg 1.16 MB
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One place to begin is to check ALL partitions on the source disk with the
CHKDSK X: /R (where x is the drive letter being checked).
If any partition is hidden or non-lettered, you will need to temporarily assign a drive letter so it can be disk checked for errors.
The drive letter can be assigned in the Windows disk management console.

If disk errors found, you may want to re-run the chkdsk command again as sometimes one pass does not get them all.

Ok so I ran chkdsk DRIVE: /r for everything, and did it twice for the C drive. The second time it said no disk errors, and I also defragmented the C drive from 13% fragmented to 0% but not sure if thats relevant. Unfortunately I'm still having the same two problems as before, and when I choose a source drive the bars still have that red cross on them (the ones seen in one of the original images) telling me that there are errors, and for some reason say that one of the partitions is 1.909 TB, which is clearly wrong.

Any ideas as for what should I do next?

Looks like your issue is the disks with sector sizes.
https://kb.acronis.com/content/45437

This would seem that your only option is to perform a disk option backup and then restore the backup onto the new disk.
The restore should be done when booted via the TI Recovery CD.

Signature link 2-A shows how to create a "disk image" or "disk mode image."
Signature link 3, item 2 shows how to restore a disk image to a same size target disk.