Engine replacement after engine failure: Do I need to reset the ECU for a 2.0 TDI?

Hello fellow diesel mechanics.

I'm Sven, I'm 40 years old, and I'm new here.
I have a question for you experts, and I'm hoping someone here can help me.

Here's the situation I'm facing.

Approximately 2.5 months ago, I experienced an engine failure in my Skoda Octavia RS 2.0 TDI (manufactured in November 2011) with the engine code CEGA.
Unfortunately, the pistons in 2 cylinders of the engine had melted, effectively ending the engine's life after 305,000 km.

Okay, I've managed to source a complete replacement engine with AGR (Exhaust Gas Recirculation), turbo, fuel injection system, etc. (supposedly with 56,000 km mileage, but who really knows for sure). I've also installed it. During the overhaul, I also replaced the clutch including the dual-mass flywheel (DMF) and release bearing, the timing belt (including all pulleys, tensioners, and water pump), and the DPF (the old one couldn't be cleaned because the ceramic material was broken).
I reset the ash value in the control unit because it was a completely new DPF, and I hope I did it correctly.

The engine is running, and there are no error codes being stored in the engine control unit. However, I have the impression that the engine slightly jerks or stutters when accelerating from low RPM (approximately 1500 RPM). The jerking disappears just above 2000 RPM.

Unfortunately, I'm not very familiar with VCDS yet. I know how to read and clear error codes, and I can manage a few basic coding procedures.
However, when it comes to things like resetting the learning values of the MSG, I prefer to be cautious and conservative.

Therefore, I would be interested to hear your thoughts on this.
Should I reset the learned values of the engine control module (ECM) after replacing the engine? Does this offer any advantages, or is it even necessary so that it can relearn all the sensor data?

If I have to do this, it would be great if someone could tell me how to do it using VCDS and what else I might need to do afterwards (e.g., resetting the throttle valve, intake manifold valve, and EGR to their default positions?).

Thank you in advance for all the tips I'm receiving. Otherwise, I wish you all a wonderful Advent season.

Best regards,
Sven.

Perhaps to start, set up a complete car scan.