Bryan Gibson has a couple of great ship interiors (Type S with that 'lived-in look') and he did several for the center pages of DGP's Starship Operator's Manual that really do a great job of illustrating civilian craft interiors.
As for military, I have kind of a Space: Above and Beyond, BSG, Starship Trooper motif in my head. Another movie that did a good job of military ship interiors is Wing Commander.
I've toured an Iowa-class battleship back when the USS Missouri was stationed in Bremerton (Washington), and have toured 4 modern US Navy subs (along with the ex-Soviet Foxtrot in Seattle) so I have an idea of shipbuilder thinking when it comes to military ships. And trust me, you want to serve aboard a US sub... the Russian Foxtrot-class boat doesn't have the accomodations of a WWII U-Boat.
So, I imagine the interior of a military boat to have open duct and wiring, stencilled labels for everything, cramped quarters, excellant kitchens and so on.