[XenonSurf]

Hi SurfnSea3,
I'm not pleased to reveal it to you, but in SH5 there is pretty nothing to do to 'manage' your crew. What you can do is distribute them more points for their capabilities (I don't recall the shortcut, I think it's I). You earn these points by succeeding missions.
Also if your sub is in big trouble like flooding, the only thing you can do is talk to the engineer to speed-up repairs and set the crew to Battlestations Level 2 (for that you need to play TWoS and talk to the Watch Officer). Don't forget to revert these orders else the crew will stay on alert and be less effective elsewhere.
For torpedos, there is a "Pre-heat" order to give to the torpedo man, but you need to travel all the way to him to give this order.
AFAIK, that's pretty it for crew management.
If you miss crew management a lot then I advice you to play SH3/SH4 instead, there is much more to it.

For the Watch Crew not on the bridge: Do not ALT-TAB out of the game, else you will screw it up, instead save/ALT-TAB out/reload game.