One of my PCs still brings up the time he bought the crew some local drinks only to tell them later they were effectively made from the insectoid resident's "secretions".
"Slurm! It's highly addictive!"
In 50 Fathoms and Pirates of the Spanish Main, crews that have been at sea for a long time start taking Fatigue. The only way to remove this Fatigue is to stop in port and allow the crew to Carouse for a couple days. The various NPC "extras" are assumed to spend their wages, while the PCs make a Carousing roll. If they roll well, they are entertained and refreshed through mild debauchery. If they roll poorly, they blow a lot more money, have to be dragged from the gutter back to the ship in a cart, and probably pick up a nasty case of the clap. Needless to say, some players prefer to roll poorly.
You might introduce a similar idea to be brought out every so often. After a couple hours in the car with my wife and kids I start to lose it, and these are my favorite people in the world. These folks are blasting around the Galaxy in a tin can together for days on end. The Trandoshan's breath smells like rotting meat, the Bothan has fleas, and have you ever been around a Gand with the runs? Next time they pull into port, say, "Excellent, you meet your contact and get paid. Looking around, you realize you can't stand the sight of each other for at least a couple days, and your back hurts just thinking about getting back on the ship. What would you like to do?" Then let them do that. If a story opportunity comes up, great. If not, don't sweat it.
Regarding using the ship as their standard transportation, it's all about terrain. On Tatooine, yes, sure, fly that sucker everywhere. Well, not the canyons, but everywhere else. Endor? Felucia? Kashyyyk? You gotta take whatever clearing you can find. Weather is going to be another problem. Consider how much trouble an airplane has in even a small storm. Now remember that all of these starships are the opposite of aerodynamic. Wind can impart an incredible amount of force on a large surface. Also, Starships are more easily tracked and more closely monitored by those who do such things. They fly higher, put out more power, and are often up to no good. If your group is trying to avoid notice, they're probably going to park out of the way and rent some speederbikes. Or a van with sick wizards and dragons airbrushed on the sides. Yes, that van is less conspicuous than a YT-1300.