Please post more details!
I have not been happy with the 47re and its O/D behavior. I seem to have both the hanging without shifting and shifting too early issues. I have had moments where it hangs in the lower gear and will not go into O/D on flat level highway, no wind, steady at 65mph and an empty 8x20 enclosed cargo trailer in tow. The most memorable was I-5 northbound "near" Corvallis, OR from the Oregon Highway 34 onramp. I had to let it coast down to about 55mph before O/D would kick in. I guess I could have hammered it to 70mph based on the reflash post.
I wonder if the reflash will help this: Empty or loaded with light throttle it will upshift to O/D at about 44mph. Usually this is not a problem empty, but it makes a really sick chugging sound

for a moment when I am towing my trailer. I have interpreted this as the dreaded lugging, but this is my first diesel so I am not absolutely sure. I have been trying to remember to set the overdrive off when I am towing in traffic, but sometimes when I get off the highway I forget.
I also had a scary situation where I was climbing a fairly steep hill with O/D off. (Alabama Highway 40 at Hale Gap, just across the river east of Scottsboro according to Delorme Street Atlas. ) Truck and trailer combined gross weight estimate no more than 13K. The truck and trailer were rolling well at 40mph. I had just come around the final turns near the top and needed to pull over the last few hundred feet of climbing. That last section is a bit steeper, so I gave it just a
little more throttle (nowhere near WOT). In a flash there was no more pull and the engine RPM shot up to 4000 before I could get my foot out of it. The engine and transmission sorted themselves out and were responding properly when I carefully put my foot back into the throttle. We got up the last bit of hill putt-putting at about 20mph. That is not what I expected/wanted from the CTD.
I love the truck, but the 47re worries me in the stock condition.