What about a Yacht? That could hold plenty of people if some of the more luxurious parts get stripped down a bit. Based on cargo space, it seems it could also house a couple ships, though you'd probably need to add a door of some sort.
Prison Liner would work great, but you'd need to swap around IDs for that.
There's always a Heavy Lifter, too. It can carry big boxes through Planetary atmospheres - it's got to have enough power to carry some shuttles and people.
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