Automated ships are weird.
It is. Because automated hulls are not better than human hulls, it is weird alternative blend of Officer Training and Cybernetic Augmentation. Player gets one large ship with an alpha core (Radiant taking a huge CR penalty) or two to four smaller ships with alpha cores. Anything else, player is probably better off with human ships buffed by officer skills. Also, cores do not give battle map DP, which makes it feel a bit inferior to Officer Training/Management.
The main appeal of Automated Ships for me is unlocking access to automated ships, even if the ships are not (or barely) good enough to justify Automated Ships being a capstone. I feel like I should be unlocking boss characters much stronger than standard or at least, and it did when Radiant was 40 DP few releases ago. Now it does not, it feels like I am unlocking more costumes instead of stronger, unfair, or unbalanced units, if not for AI cores. It probably should be in the same tier as Officer Training/Management at best, and only because of the power of alpha cores. If automated ships stay more or less balanced as human hulls, then the skill should be changed so that the hulls can be recovered and deployed without the skill, but installing cores (which gives automated ships power superior to human ships) and deploying them (in case core gets installed and player respecs later) requires the skill. Also, cores counting as officers for DP should be reverted back to counting. In short, cores uplifting automated ships above human ships practically makes Automated Ships a weird officer skill. Without cores, Automated Ships is no better than the non-combat (tier 1 and 3) Industry skills.
Neural Link is basically Automated Ships that works for human ships, and it is even worse (giving one human ship your commander's beta-omega core equivalent skill power). Only one ship regardless of size and a significant OP penalty (from the Neural hullmod tax). Neural Reset helps fix few dysfunctional systems with absurdly long recharge like Quantum Disruptor. Neural Link also relies on taking more personal skills in Combat and possibly Industry for its power. At minimum, Neural Integration should be removed, and Neural Interface works with everything (as long as automated ships without cores are generally no stronger than human ships without officers). It would be better if there was no hullmod tax, or the hullmod was free if it has to be kept to make UI usable. Also, get rid of DP limit that enforces a delay between transferring. As it is, it is no better than other tier 3 tech skills.
P.S. Another thing against automated ships is the player cannot get blueprints for any of them. If player wants pristine automated ships, he needs either Hull Restoration (and not accumulate too many d-mods to drag out d-mod removal) or lots of credits to Restore them. (Remnants will always have d-mods when recovered from the enemy. Maybe Derelicts too, but those have Rugged Construction.) Restore costs for automated ships are high, about on par with elite high-tech human ships. Makes Hull Restoration very attractive to get those ships pristine.