I think that the strongest idea behind cybersphinx' design is that all the buttons are together, I'm not sure if it's fine to separate them. Actually, there would be no problem if we have a good hub design that integrates both parts, so they would look more like a single menu rather than two separate things (I don't know if that's the original idea, I know it's just a quick sketch).
Idea 1 makes it somewhat pointless to have hexagonal buttons, which is a nice link between the website and the game, so I think that as it is now, it doesn't look like we are promoting any effects with the distinct shape of the buttons, and if we change the buttons themselves, it'll loose the nice relation to the in-game panel, so idea 1 isn't the best choice IMO.
Idea 2 just centralizes what we have right now, I don't see any nice composition that would make it worthy changing the layout for, in addition to not having the icons, which are very good because they allow people to find things much more easily in future visits (they can have their own color, and will have their own illustration, that's 2 more elements for people to remember "where was that page" - looks lame since it's just 6 buttons and it takes 5 seconds to find & read them, but it makes the interface much more friendly. For example, if your eyes detect a floppy disk, what you'll remember? Most downloadd buttons are green, so I think we can use that. Then you just take a quick look at the first 1 or 2 letters in the text label, and see "Do...", and you're already absolutely sure that it's a download button

) this makes idea 2, and our current layout, not the best choice, thinking logically.
Idea 3 makes good use of the hexagonal shape of buttons, promoting a fit between them that is uncommon and interesting - reminds me of a futuristic design because it tries to end with paradigms (no pun intended). Its labels are nicely positioned as you'll be already loking laft/right at the buttons, you just have to look "a bit more to the left/right" to read it. Its most visible flaw is that the buttons are separated - but I do believe that this can be fixed with the promotion of a connection between them, namely a hub which also contains the logo, but doesn't fill the whole height of the header - it should be something that looks apart from the background, something that serves the purpose to provide a connection between buttons and the logo.
~Olrox