A bit of an aside in regards to what you've accomplished. Great 3D content to work into prints... they're going to be really, really nice, and certainly for that level of detail resin printing is the way to go. So congratulations are certainly in order for great progress.
That said, here's what I was thinking. An alternative to painting all the figures once printed would be to do them in clear resin... sort of ghost figures if you understand what I'm getting at. Not ghost, as in scary Halloween stuff, but ghost as in ethereal. They'd be present on the model to add scale and realism, but not be the focal point of viewing when looking at the model itself. It's a bit of a different take on how to use scale figures, but I think it would be an interesting approach. Of course you can always temporarily place a few on the ship model to see if you like the concept, and if you don't like it, you then paint them.
Food for thought. Looking forward to seeing your progress on this. I personally FDM print (filament deposition), and full well know I can never reach the level of detail you'll get with resin. So I'll live vicariously through your actions.