I like Tacticslion's list, with potential editing as needed to make the extra equipment match what the original mission of the star ship would have been, though it would probably make your life easier if you expect a little variation depending on the race/classes that people actually build. Pull out some equipment/value, maybe 1-2k spread across the party, so if someone's looking for something specific (and that thing is reasonable, and not out of level/tier), offer a roll to see if they can find the thing somewhere. We usually go with 2d6, and if the GM wins, no thingy, but if the player wins or ties, they can find the thing they actually want.
I would lean away from having cybernetic parts available, since no level 1 PC is likely going to be able to install it.
The other way to go would be to have some actual listed equipment, and supplement that with schematics for a bunch of the available items, and a box or two of UPBs (Universal Polymer Base) so the crew can have the 3d printer whip up whatever equipment they may need.