Questions for the smart people.

My P2563 code is gone after cleaning the turbo, it cleared itself after 2 cans of turbo cleaner spray and a heavy romp up the freeway. I decided to unplug my EGR to stop the soot from being shoved back into my engine. Unplugging my EGR dropped my intake temp by 50+ degrees. Here’s the question, after unplugging the EGR I cleared the code. Should I have left the code in? Will clearing the code make something else think everything is ok and mess something up? What is the purpose of the throttle valve? Can I loose that too? Can I unplug the EGR thing on top of the cooler also?