I'm not 100% sure what the problem is. Can you post the errormessages you get when you try running BeBot?
My guess is that you havn't set the right privileges for the BeBot MySQL database yet. When you have the Mysql.conf file looking like shown in this
guide, ie: like this:
<?
$dbase = "bebot";
$user = "Bebot";
$pass = "banana";
$server = "localhost";
?>
you can set the priviligas manually within the MySQL client by using the following query:
GRANT ALL PRIVILEGES ON bebot.* TO 'Bebot'@'localhost'
IDENTIFIED BY 'banana';
For this to work you must have already created a database called bebot first with:
CREATE DATABASE bebot;
Maybe this helps.
If it doesn't, please supply the errormessage you get when running BeBot.