Something has changed - the bugs have up'd their game. Numerous reports from both civilian and miltary Commanders have told of encounters with Thargoids where, after the battle they were cleaning up the debris and dormant Thargon fighters, a further warship appeared and suddenly all those drones were no longer dormant but flying and blasting. Some unfortunates have even reported this happening with drones that they have already scooped, with more than one ship being destroyed as the drones bust out and start attacking.
If you like fair play then install CustomShields OXP to give shields to the pirates and [wiki=RealisticDamage_OXP]Realistic Damage OXP[/wiki] to enable destroying your equipments during your flee. It is only the first step, the second can be the Breakable Standard Equipment OXPs and you will be surely cautious. ;)
btw, they are remaking the Homeworld Games and re-releasing them soon for Steam