I don't know how you compare these two cars really - apples and oranges.
Accord-comfort cruiser. Quiet, smooth ride.
GTI, fun, snappy german feel, much sportier ride.
I've read in more than one review that the interior of the MK6 is on par with Audi and I agree with this, I think you get more for the money with a VW. A great deal of parts and engineering is shared between the two brands, VW just specializes in mass production.
I've had a couple of Hondas, new and used. I thought they were decent cars, quality-wise they certainly were better than anything American at the time (80's)
Hondas have gotten better too, I wonder if Honda practices platform-sharing with Acura
the same way VW does with Audi and Porsche. (A little trivia - the Porsche Cayenne, VW Toureg and Audi QX7 are all built on the same chassis.)
I'm starting to ramble. Get a GTI.