Ummm...you listed brakes twice.
Anyway, a lot of this is going drive-by-wire in software. Off can be a problem with push-buttons. (Which is why they should only go with keys or key-like switches, but that's a different issue.) I think transmissions are going drive-by-wire too. They'd more-or-less have to in most hybrid designs.
So a mechanical brake link that disengages the clutch and prevents the electric motor in hybrids from accelerating sounds like a good idea to me.
Well it depends on the hybrid. Something like a Fusion Hybrid or Prius have single planetary gearsets/power-split transmission. So basically you have a forward 'gear', no true reverse(the computer feeds negative voltage to MG2, applys negative torque to the wheels so you then go backwards, if the battery is low the system can use MG1 to draw power from the ICE to help go backwards), and no true neutral so to speak(Achieved by turning the electric motors off. Under this condition, the planetary gear is stationary if you are stopped, if the vehicle wheels are turning, the ring gear will start to rotate, causing the sun gear to rotate as well, while MG1 freewheels so no power is dissipated.)
But I can tell you from driving my Fusion Hybrid that I can shift to neutral while accelerating, and that it already has a brake override, I can stand on the gas pedal while holding the brake and go no where. And I wouldn't worry about the MG1/MG2(aka electric motor) accelerating even when the system shunts max voltage to said electric motor it won't let you maintain it for more than 10 seconds max more or less to conserve the battery, I'm sure it's similar for Toyota hybrids.
One thing that makes me think it IS electronics is that none of the recalled cars were hybrid cars/trucks. I know for a fact it's a different ECU/PCU on the hybrids yet no recall...but thats just my personal opinion on the matter