Freetraders will find that the skills from the Logistics line, which are predominantly economic-based, will have some passive combat boosts going on underneath. Naval Officer's repair skills will strip disabling effects in 1.2, and they will get an extra point of damage reduction from a buff of theirs.
Pirates will receive some boosts to damage reduction in their defense line, a close speed and hauling damage increase for their base pirate career skill, and a reduction in the penalty they currently have for gold drops. Finally, privateers will find their Unpredictability line of skills will cost less morale to use, but will have the same effect on maximum morale. For more on these changes, and to see the rest of them, check out the devlog.