We went to Alaska in 2009 in our 35' Hurricane pulling our Libby (the Canada/Alaska portion of that trip starts
here on our blog) and there are a few suggestions I would make:
Drive to Prince Rupert, BC and catch the ferry there. It' a beautiful drive and will reduce your ferry fares by about half. Make sure you go to Sitka while on the ferry. It's a little out of the way but a must see.
Make sure you spend some time on the Kenai Peninsula as well as Portage on the way down.
Valdez was also very nice to visit, especially the tour into Prince William Sound. The tour out of Seward on the Kenai was also very well done.
You didn't mention Denali NP, but that is on your way from Fairbanks to Anchorage and a must see.
If you take the ferry both ways, you will miss the Cassiar highway and the bears at Stewart/Hyder.
Two months is probably adequate for just Alaska but you will need more time to get there and back.
Probably a lot I have left out but it is a big state and there is a lot to see!
