I had the same trouble with my EQ5 mount, and I discovered, that the synscan handpiece does not have tracking enabled by default. So essentially you'd line up the star, bring it back to centre, repeat this until you ran out of adjustment.
To make a long story short, I found that when I enabled the tracking in the handpiece it quite literally had the polar alignment falling in my lap. Until that point it was one of the most frustrating things I have ever had to deal with.
This may not be your problem, but something you can double check just incase. If it is, I hope I have helped
