Here are some spoilers:
There are also two official spin off sites where there are clues to plot supposedly:http://www.thehansofoundation.org/http://www.rachelblake.com/
Notice at the bottom of the hanso foundation one is what appears to be some cryptographic code.
Also the latest blog on rachel's site has binary code as well. Also the second, i think post, has an image that if you click on it takes you to:http://www.hansoexposed.com/
Another official spinoff site.
The producers have done a great job incorporating the Internet into the story plot.
At hansoexposed there is a fragmented movie where you have to find codes throughout the internet.
The final movie can be found here:http://www.youtube.com/timdorr
Last the hatch map from Season 2:http://www.cs.iastate.edu/~andorfc/paint.html
Now I am done being pathetic