I just ran some tests and it seems that any surface samples taken by a kerbin are deposited, and then tied to the first craft he enters, and do not move with the Kerbal. This drastically lowers the value of lander based missions, and favors direct ascent mission profiles. Is this an intended feature of am I not getting something. I would like to run a legitimate Apollo or ZOND science mission Profile but it seems thats seems useless now.