Volume size and Capacity size Don't match

Hello,
I have a fileshare running Windows 2008 R2 that has a Dynamic Disk that is 1670.78 GB formatted NTFS.  The problem is if I look at the properties of the volume it says that the capacity is 987 GB.  I'm not sure how to get the capacity up to the
full size of the volume.
The histry is we had a 2003 x64 file share that started life as a scratch place to store files so was RAID 0, according to the original specs for the project that was what they wanted.  After time passed the share became permenant storage and loosing
it was actually a problem.  At that point I wanted to make it RAID 5.  However I also was hoping to keep the Shadow Copies to enable them to find previous versions of files so I ended up creating an iSCSI target and mirroring them through windows,
which made a full backup including the copies.  I then broke the mirror rebuilt the RAID and then re-mirrored to the new volume.  However becuase of going from RAID 0 to 5 I lost some space so had to resize the volume.  I used a 2008 R2 machine
to shring the volume and then raised the capacity back up to the full size.  However the space available never actually grew.
At that point I figured the problem was from the machine still running 2003 R2 and having been touched by a 2008 R2 machine.  So I scheduled an upgrade and the server is now running 2008 R2, however I am still missing 600GB.
I can't expand the Volume at this point since there is no free space on the disk, and if I try to shrink the volume I get the option of how much to shrink, then after saying ok I get the error: "The parameter is incorrect."   When I look in the
Application Log I see an error saying the volume wasn't defragmented because an error was encountered. "The parameter is incorrect. (0x80070057)"
Please let me know any suggestions or if there is any additional information that would be helpful.
Thank you,
Eric

Hello,
Here is the chkdsk result:
CHKDSK is verifying files (stage 1 of 3)...
  406672 file records processed.
File verification completed.
  3368 large file records processed.
  0 bad file records processed.
  0 EA records processed.
  0 reparse records processed.
CHKDSK is verifying indexes (stage 2 of 3)...
  469986 index entries processed.
Index verification completed.
  0 unindexed files scanned.
  0 unindexed files recovered.
CHKDSK is verifying security descriptors (stage 3 of 3)...
  406672 file SDs/SIDs processed.
Security descriptor verification completed.
  31658 data files processed.
CHKDSK is verifying Usn Journal...
  314844376 USN bytes processed.
Usn Journal verification completed.
CHKDSK discovered free space marked as allocated in the
master file table (MFT) bitmap.
Windows has made corrections to the file system.
1035144191 KB total disk space.
 912448340 KB in 341209 files.
    165660 KB in 31659 indexes.
         0 KB in bad sectors.
    809607 KB in use by the system.
     65536 KB occupied by the log file.
 121720584 KB available on disk.
      4096 bytes in each allocation unit.
 258786047 total allocation units on disk.
  30430146 allocation units available on disk.
Even though it reports altering the free space when I go look at the disk I see this:
(This is the best command I've found to copy into here, if you know a better one please let me know)
DISKPART> detail volume
  Disk ###  Status         Size     Free     Dyn  Gpt
* Disk 1    Online         1670 GB      0 B   *
Read-only              : No
Hidden                 : No
No Default Drive Letter: No
Shadow Copy            : No
Offline                : No
BitLocker Encrypted    : No
Installable            : No
Volume Capacity        :  987 GB
Volume Free Space      :  116 GB
I don't think this is just the difference between size and size on disk, I think for some reason my MFT or something is screwed up.
Please let me know what you would like me to try next.
Thanks,
Eric

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