If it comes off of the chip when you let go of the button, then the brake stays on for the desred setting (1.040), I'd say the 2 step is not activated from the delay box.
I believe I misunderstood what is happening.
Red wire on the 2 step and trans brake need to be wired in sync - unless you want it to leave wide open on the converter. Then you could just pull the low side chip out.
5800 is fairly loose IMO. But 5000 is a bit tight, although maybe not enough to have it torn apart. 52-5300 would be my target, IMO.