I solved it! I did the whole thing again with just one change. See below.   1. Cloned my 256GB SSD to the HDD using Macrium. 2. Installed the 2TB SSD. 3. Cloned from the HDD to the 2TB SSD. 4. 
 
   Restarted the Comp and it defaulted to the old HDD. 
  Shut down the computer and disconnected the HDD. 5. Started the comp and it worked JUST FINE. 

   5. Restarted again and Hit F12 for boot options. 
  

   6. Selected the 2TBSSD and Windows launched fine. 
  

   7. Formatted the old HDD. My assumption here is that if it was "clean" the comp wouldn't try to boot from it. 
  

   8. Kept having to manually select SSD each time I restarted comp even after the formatting. 
  

   9. Did a full disk clean of the HDD using Disk partition. 
  

   10. Comp stopped booting entirely and SSD no longer showed up in boot options. 
 
Hi, Newbie here. I recently bought a Samsung 980 Pro 2tb Ssd to upgrade my stock 256gb Ssd that came with my R9. My R9 also came with a 1tbHDD. Something went wrong though and I am wondering if someone can help. I'll describe my process in steps below. 1. Cloned my 256GB SSD to the HDD using Macrium. 2. Installed the 2TB SSD. 3. Cloned from the HDD to the 2TB SSD. 4. Restarted the Comp and it defaulted to the old HDD. 5. Restarted again and Hit F12 for boot options. 6. Selected the 2TBSSD and Windows launched fine. 7. Formatted the old HDD. My assumption here is that if it was "clean" the comp wouldn't try to boot from it. 8. Kept having to manually select SSD each time I restarted comp even after the formatting. 9. Did a full disk clean of the HDD using Disk partition. 10. Comp stopped booting entirely and SSD no longer showed up in boot options. So, where can fix this? I still have the original 256GB SSD and it works fine but before I go through all the trouble again, I would like to know how I can solve the boot issue and have the comp just boot normally from the new Ssd.    
Aurora R9, SSD upgrade failure