Problems with annotating in preview

hi,
i've had no issues using the annotate function for preview prior to my snow leopard upgrade. the most important function for me was the highlight text function for use in lectures. however, after upgrading, the text i highlight often highlights in "circles" or "ribbon-like shapes" if its a huge chunk of text. i've uploaded some pictures in case you guys don't quite understand what i mean.
it would be perfect if there's any way i can revert back to the older version of annotating for preview. ):
this is what it looks like before upgrading:
this is what it looks like right now:

So, a week later, and I think I'm narrowing in on the problem. WARNING: long post follows:
When I bought the new Macbook Pro, I bought an SSD after market to install in the optibay. Once it was installed, I reinstalled Mountain Lion on the SSD and obliterated the original hard drive. I then moved my Home folder from the SSD to the traditional hard drive using instructions found many places on the 'net. (CNET is one source, but there are many others.) Essentially, I created a dummy Admin acount and used it to copy the data from the SSD to the traditional hard drive, then changed the Home folder in System Preferences. Worked like a charm, no errors. Or so I thought.
I kept the dummy Admin account on the SSD for general troubleshooting, so last night I tried logging in with that account and working in Preview to do what I was trying before... and it worked just fine. Menus popped up super quick, the Export and Save As functions returned the appropriate menus... in short, perfect operation. But this doesn't work properly on my regular user account, whose Home directory was moved.
I didn't use system links because most articles said this was unnecesary under Lion or Mountain Lion. But it does seem like something is not working correctly, as these menus will not pull up on the account with the moved home folder.
Any ideas?
Thanks again!

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