Hi,
did you ever try the Finereader- Software of ABBY?
(
http://www.abbyy.com/finereader%5Focr/)
I bought it, so i could do some testing for you.
otherwise, just download the trial...
With Finereader, you can do a lot of stuff manually
also, so i think the result will look great!
Greetings from Switzerland
_darius