This thread will answer alot of your questions.
http://forum.ppcgeeks.com/showthread.php?t=44689
Also check out this thread. Might be a good idea to download that manila at the top of the first post. I think its the newest version. Dont know though. All I know is that is the one the I use and since Ive changed I dont get random **** happening when trying to change files(wont load,clock just flips, clock shows all 0's etc.) Pretty much all mods that are out work on that version.
http://forum.xda-developers.com/showthread.php?t=432951