We do not know exactly why the vials would have fallen over during the run. This is very unusual. Did they fall over before or after the stoppering action? A tray with edges would certainly help keep them on the shelf. If I where the end user, I would use a tray and space the vial more evenly on the tray.
As for the condensation, more than likely there is gap in the insulation at the back of the unit. If room air is allowed to get into the insulated area (through a gap in the insulation) then ice can build on the cold components. When the unit is turned off, the ice defrosts and drips down and runs out of the cabinet of the Triad. It slowly melts, that is why the water continues to show up for so long.
Please answer my questions regarding the vials falling over and I can help you further. Scott Hamm, our product service person for the Freeze Dryers is copied on this email and he can help you further regrading the gap in insulation