The Bells of Saint John - S7-E8
Visible crew/equipment: After Miss Kizlet enters her office to find the walking base station Doctor sitting at her desk, as she walks around the motorbike lying on the broken glass, when this 'Doctor' says, "Yes, those still with bodies to go home to would be free," we can see the moving reflection of two crew members on the surface of the motorbike.
Visible crew/equipment: When the Doctor is painting the fence and vacuuming the living room, Amy lifts her legs to let the Doctor pass with the vacuum, revealing the transmitter for her mic in her back pocket. (00:07:45)
The Bells of Saint John - S7-E8
Visible crew/equipment: When the Doctor and Clara are riding through London on their motorbike, the camera rig filming them is visible in their helmets. (00:29:05)
The Bells of Saint John - S7-E8
Visible crew/equipment: When on the motorbike, the camera vehicle and equipment is reflected on the Doctor's helmet.
Chosen answer: 1) When Stephen Moffat took over he ignored a lot of what had been developed before (there is not in-universe answer). 2) It would have killed Rose, so the Doctor absorbed the energy. His body regenerated before the energy could do a significant amount of damage that would prevent regeneration.