Everyone's still getting a handle on the game, I think.
Were you wanting Stock, or the Balance Mod?
The process works fairly simply. The players send in their empire files, the host sets up the game (making sure to select Different Machines), then sends out the first turn.
The only wrinkle is Simultaneous mode. That's how most SE players prefer to play multiplayer. Here, instead of the turn file being passed from player to player, its sent to all players at once, then they send the turn back to the host. Once all the turns are in the host runs the turn and sends out the next one.