I thought of that, but I thought that long periods in space away from civilization on a station might get you serious cabin fever overtime. By having individual rooms pirates on station can have some level of privacy and have better spirits because of that. For the privacy reason, I placed shower/toilets in each room as well, instead of a common commode/shower room - as is in military situations.

I see my pirates as less a military unit, rather rogues hired on over time, so some level of civilian necessities outweigh pure military efficiency.

I haven't fully decided. Regarding the trouble to create bunks instead of state rooms, that's easy enough. If I started right now I could model a 3D bunk bed in about 10 minutes, replacing the single bed and re-rendering would add another 5 minutes and replacement complete.

So its a matter of choice, not really any extra work...