[Logic Ali]

A few things that stand-out immediately are:

document.body.onload=CueComment();

should be document.body.onload=CueComment; although it's more usual to attach the handler to window.

function CueComment(){
while (CueIt == 1){
Rand = math.random()*(CommentList.count);
CueIt = CommentOn[Rand];
}
CommentTwinkle(Rand);
setTimeout('CueComment()',1000)
}

Nothing ever sets the value of CueIt to 1.

math.random()

should be Math.random()