Ok, I got this ship in a bundle that had a lot of other ships that I wanted. I have the Cleveland and just got the Nurnberg, so I'm not experienced at high tier play. I'm keeping my current Cleveland captain on her and will share with the Atlanta. When I finally finish the grind to the Pensacola, I have a 6 pt Captain also trained on the Cleveland that I was going to move to the Pensacola. I have PT (to know when to run), EM (I like fast turrets), and DE (for better fires). Based on the excellent posts above, I'm thinking I need to respec this captain as I plan on sharing between the Pensacola and Indianapolis. I plan on taking the Indy out with this captain a little bit to get ready for the Pensacola. I took Main AM1, Aim SM1, Prop M1 and Steer M1.
You can use the same captain skills for both. The only one that is a must to me is the one that lets you know how many enemies are targeting you. The ships operate very similarly (Indianapolis is Pensacola's younger cousin). Honestly, you can use the same captain all the way up the US cruiser tree. New Orleans, Baltimore and Des Moines all behave similarly.