I have no wish to face three live players with nine ships between them. Between the lag and other connection issues I don't think it can handle it. I mean you are asking a system that can't even hold 6 live players most times to try and have up to 18 player controlled ships try to be drafted.
I think there is a simple way to make PvP worthwhile and make it easy on the admins too: Challenges.
Except for the Disengagement Rule (this helps control the map for the strategic players), all non solicited PvP will be penalty free. If you want to get personal VC's for your side, you must challenge an opposing player to combat. You may only score points by being the challenger and winning.
The challenged does not lose points for their side if they lose or gain points if they win. The challenged may decline without penalty, but once challenged he/she may choose the hex of the fight and the odds. The hex must be one either side can easily access.
The odds are what player set up you use, i.e. 1v1, 2v2, 2v1, 3v1, 3v2. This is the edge that he/she feels they need to take on the challenger. The payout depends on the set up: 1 point for even odds, 1.5 for 3v2, 2 for 2v1 and 3 for 3v1.
Once the challenger sees the odds offered he/she may widthdraw the challenge at that point without penalty. If the challenge is agreed upon, met and won the challenger gets the appropriate points.
Fights may be to the death or until driven off, that is the purview of the players involved and must be agreed upon before hand. Points won remain the same.
Any disputes over outcomes will be handled civilly or no points will be awarded by purview of the Admins of the server.
If good faith is shown, but the matches are not happening due to connection issues or bugs in the missions, either party may widthdraw or ask for renegotiation without penalty. I would suggest three good trys before giving up.