Possibly what the chap is saying is something that worked for him, but I don't think that explanation is a very good one as far as the ST1300 goes.
He is working on a single pot caliper. The ST1300 has 3 pots at the rear. I think that by pressing on the brake pedal he is ensuring that the face of the piston and the face of the disc rotor are clamped together - but if that peg has been taken out, the hole into which it fits is not then necessarily aligned properly and could result in the pin getting cross threaded (He did say don't take the pin out though).
On the ST1300 there could be all sorts of things that are preventing the caliper from being aligned with the disc rotor. One of which is the pistons not working properly (as you discovered). But others are bent slider pins, caliper spring incorrectly seated, disc pads incorrectly fitted at the forward end, grit behind the anti squeal plate, Damaged locating tab on the pad spring, ……
Applying brute force (like pressing hard on the brake pedal) to a situation which is not quite right is only going to make things worse. In your case, the caliper was not moving on its pins properly because the pistons were not retracting. It could easily have been because the pad had been fitted in front of the little tag on the pad spring, not behind it. Braking hard in that situation would have forced the pad to either bend the tag or break it off.
The best answer is to work out what was happening - which you did - then fix the problem - which you did - and your brakes end up working perfectly.
I still maintain that the pins should be fitted (if they have been removed !), then the caliper mounted on the bracket so that it can be checked for smooth movement, and go from there.
The stopper bolt will then self center itself when torqued correctly, then the axle nut is torqued correctly, and your caliper will be true.
Quite right - but I think the video and Rob's issue was to do with the slider pin rather than the stopper bolt. From what I can make out from fiches, the Harley Sportster bracket doesn't have a stopper bolt - the bracket is cast to fit around the swing arm top and bottom. So the part pointed to in the video appears to be the slider pin.