The Motorbediengerät was an integral accessory of the Jumo 213 engine and couldn't be removed or replaced neither entirely nor partially. So the red Notzug handle being a part of the device was still there. However, the reality of whether pilots could freely use it in combat was a completely different matter.
Towards the end of the war, the quality of metal alloys used in engine construction deteriorated drastically due to a shortage of raw materials. Forcing the Jumo 213E engine to operate without the precise assistance of the MBG system created an immediate risk of engine damaging. Consequently, mechanics in units frequently installed wire seals on the Notzug control. Pilots were permitted to break this seal only in situations of extreme mortal danger. What is more , it seems that using of the dedicated MW 50 system was more safer. This injection cooled the combustion chambers, allowing engine power to be increased without risking structural failure. This rendered the use of the mechanical Notzug override completely pointless in a functional aircraft. IMHO
E
Engineman may add much more.