The grounds-- one is on the bottom front of one of the recoil bolts (brown wire) the other is on the steering loop bolt on the right side, inside the bulk head and is very hard to see (black). Just check to make sure they are tight and attached. If anyone ever tried to take off the steering loop they usually break them, the bolt on the steering loop goes through and runs into a nut sert to tighten them down, then they put the grounds on the threads sticking out on the inside and put a nut on that. So when you try to remove that bolt to move the steering loop it twists off the ground.
If the bog is worse when warm it usually means its a lean condition, when cold the sled/ecu runs rich like a choke to warm it up then once warm it cuts the extra fuel. The other way around would be a rich bog
The tps is adjusted with a special tool by the dealer only, don't touch it. But if all else fails you can have them check it to see if its calibrated right.
Does the bog always happen or is it usually after a WOT pull. Or just random whenever, I can easily tune that out but would like to know whats going on first.
When you tested fuel pressure did you use a quality gauge (oil filled)
You sprayed stuff at the crank seals, did you spray any at the throttle body boots, might be leaking there, inspect those.
Is the stock heat packing on the stock pipe.