Your EGR could be opening and causing a big vacuum leak into the engine, but that is a symptom, not the problem.
Dropping a gear and raising RPMs will close the EGR because vacuum drops while reving up.
That means you have an uncontrolled vacuum source to the EGR that is opening it too much and at the wrong time.
A fuel injected engine will add fuel when it senses increased O2 in the exhaust.
If you compress the diaphragm of the EGR and hold your finger over the vacuum port you can check and see if it holds vacuum.
When you reassemble the intake plug the vacuum lines to the EGR and see if it runs better
Worse case scenario you can text or email him and see what he thinks.
He is not on IsuzuPlanet anymore, but you may be able to contact him through his YouTube channel.
Or he is on a couple other sites, one is first generationtrooper.com I think.
Edit:
I watched his video again, he is using the EGR but is using ported vacuum from the throttle body, he eliminated the thermal valve from under the intake in the water passage.
So he runs ported vacuum to the transducer, transducer to the EGR valve.
He eliminates the water in the intake and throttle body completely. Then runs the long hose from the back of the thermostat housing to the heater.
So maybe your thermostatic vacuum switch is bad or your transducer is bad allowing vacuum to open the EGR at the wrong times.
You don't really want the EGR opening on a cold engine, but obviously his works!