If it's the one that came with the replacement engine then it's unlikely to be the cause.
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My thoughts exactly about the actuator. I reckon it's a possibility she's either sticking or worn out. My other rig has a 600hp Cummins Signature in it but it's just before they switched to variable vain turbo's. I've heard that they're having turbos die after 200,000klms where the traditional turbos should last a million k's. id like to check the intercooler for leaks too before I go through a turbo swap.
Cheers mate
The actuators are known to fail and linkages become stiff but usually fault codes are stored.
Attempted full throttle towing up a long, steep hill when 40 deg outside - the ecm would be trying to save the engine.
Just an example of how this problem or a similar problem is actually quite common.
DISCO3.CO.UK - View topic - Towed with the D3 for the first time today - Engine Fault!
I get a very similar result when towing every now and again the same as a few of those posts. Engine Sytem Fault and restricted power, no fault codes stored. Mainly happens when towing my camper up hill or through hilly terrain - mostly if left on cruise control and auto in D. Will happen when not towing on steep long hills - theres one just out of town that I can almost always get it to fault if I try. Best way to avoid it I found is to manualy shift down some gears and hold higher revs and no issues.