The Doctor lives with Amy & Rory for awhile.
Rory works at the hospital.
Amy, Rory, and the Doctor hide under Henry's bed.
Kate Stewart escorts the Doctor and his companions into UNIT's secret research facility.
Kate Stewart shows the Doctor what the various cubes are doing.
Rory's Dad makes detailed notes about the 'actions' of the cubes.
The Doctor examines a cube while sitting on a playground outside Amy & Rory's house.