I used the ferry to bypass most of the interior last spring when I moved up here and I highly recommend it. Sailed march 30 out of Bellingham to Haines on April 2nd, camped on the solarium deck on a deck chair.
It was snowy and rainy the whole time, but I slept great up there. Cost was $450 I think. I'd do it again in a heartbeat, particularly after 25 days in the saddle. Thre are lockers for your stuff if you're paranoid.
The only problem I see is having only 2 weeks. The ferry took 4 days, plus another 3 to get to Fairbanks due to weather. You might get to the circle and back in a day... But really, what are you coming up for if all the time you've got means you've gotta rush?