Seems fine to me and not confusing at all
- Put the categories in this order : Information - Justice - Speakerbox - Trades & Giveaway - Gaming - Learning & Support - Recycling (you can put Gaming first then Trades but the rest of the order seems to be a better option since people use more the Speakerbox than the other categories, would make things easier).
- The National Archives board topics should be cleared and its topics put in the child boards so things look more organized. You could create a "General Archives board" as a child board of the National Archives board for the topics you don't know where to move.
- Maybe create a topic for the vacancies in the "Other Applications" board and allow people to apply by making a topic or keep the PM option. So things are a bit similar than "new CS 1.6 server" board and people are aware they can apply.
- In the gaming category, the "serious gaming discussions" and the "gaming movies" boards could easily become child boards of the gaming general board, this would make the home page look smaller and better.
I don't know whether you'll implement these changes or not but this is just my opinion. Will let you know later if I have other suggestions.
Cheers.