Re: Register – Custom Home Theme
Actually, those instructions apply even if you have customized just the home theme or the member theme. Even though it does not explicitly say so, if you have customized your home theme, you should copy over the new functions.php file from the buddypress-home theme folder in RC2.
There are also some changes to the code in the header.php file that you may want to make in your custom header.php file. In fact, for good measure, you should copy over any of the files from the new theme directory that you have not hacked in your custom theme.
Finally, just in case, have you read this thread?