My $0.02.....
I personally trim off any dead stubs, rub all cuts with powdered cinnamon, and then seal the cuts, even pruning cuts, with soft, toilet-bowl wax. The cinnamon kills pathogens, and the wax seals the cuts. You can buy soft wax rings that are used to seal toilet bowls, at any hardware store, Home Depot, etc. The sooner the cambium layer rolls over, and seals the cut, the better. Newly formed cambium cannot, and will not, roll over a long stub, and worse, the soft, spongy, pithy centers in these long, dead, stubs usually rot out from moisture. This rot, almost always leaves behind a channel of decay which can enter the living portion of your rooted cutting. The wax seal on a cut will shed water. I also cut away stubs at a sharp angle, so that water cannot pool on top of the cut stub, which can also lead to rotted centers. Angled, close-to-the-stem cuts, also allows the cambium to roll over and seal the cut, sooner. The sooner, the better.
That's just the way I do it, since you asked. :) Good luck with your new trees.
Frank