I am interested to see how others would have handled this situation.
The players have been tracking a recently turned traitor naval cruiser. (the players also have a cruiser)
The navigator flubs his re-entry roll and I decide instead of out in the edge of the system they come out of the warp much farther in, close enough that the traitors notice them. The enemy cruiser immediately moves to engage (still far out of engagement range though). The players warm up their empyrian mantle and go silent running. The enemy cruiser after failing to find them also goes silent running (though without a mantle). Thus begins a week long cat and mouse game as the 2 ships hunt around trying to find each other.
Finally the players navigator is able to locate the other ship and I rule that with his direction they can get a lock on the other ship with passive sensors. So the players lay their plans and go in for the ram and board while still on silent running. I ruled that ramming an unsuspecting ship is a +0 roll instead of a -20 one. They succeed and plant their reinforced prow in the side of the enemy ship, and off go the hordes of troops and combat servitors they keep on hand.
Since they had surprise I let them have a +20 to their command roll and did not let the enemy turrets effect the roll one the first round. With the damage they caused with the ram (with attendant crew and moral loss) plus the other bonuses they had they mad a hash of the enemy crew in short order.
How does this sound to you, especially how you would handle a surprise boarding action?