Thanks Sharmstr.
1- The activation page is not what it is set too, weird right? It is set to a static page called afl home.
2 – We will update.
3 – This is also strange, why would it be set in the source code and not in the main theme settings? Perhaps this is caused by the errors thrown by bp like? I deactivated it and the menu seems to be working correctly with no other changes to the menu settings.
4 – Deactivated. This is too bad, the ability to like things is a big part of the socialization of a site. Do you have any other plugins to add like capabilities you know of?