google analytics

Brian,
You are widely known as the Google Analytics guru. We're using 6.x-3.0 http://drupal.org/node/921000 and the stats aren't what I expected. Usually GA either works or it doesn't. It is tracking, but comparing the stats to Apache logs, there is a HUGE discrepancy in the numbers - more than we can account for using our filters ( internal company IP traffic and staging site traffic ).

Here's what we've done that isn't standard:
1) Added filters for corporate traffic and to exclude staging sites