Ok how would I go about adding another menu like the top one into blackbear, but on the side and verticle, to replace the text menu's, and still keep the menu on the top like it is?

Like this site's side menu....

You're talking about the left menu??
If you just want to publish a menu to the left. Find the menu module eg. Other Menu. Make sure it's published and its in the correct position (probably left in this case). You'll want to set the menu style to flat list. This will cause the menu items to published in between <li></li> tags. Hopefully making them pick up on any styling that has been applied.

Hope thats what you're after.