Your plugs, while still being a little rich look alot better. If you this sort of combo would serve you better, it's best to jet around this combo. It looks like the mainjet is a little rich. Maybe a step down 1 would clean up the plugs and make the transitions between fueling circuits not so abrupt which will smooth everything out a bit. Number 1 is still a little rich, did you turn it a 1/4 turn in compared to the others, it would smooth the bike out alot that the reason it's a little jerky. Had the same problem with number 1 have it almost 1/4 turn in from the others and bike is smooth as silk and plugs look identical. How many shims? Looks a little rich in the mid-range, hard to tell light so bright going down one on the mainjet would help cure it though. Its up to you, looks a little rich to me but if it drives ok might be better to put up with the richness up top. I think to be honest if it was me I wouldn't have gone 1 down on the pilot since that's the most critical to cruise smoothness I guess you could pop in the stock to find out. If I was going to stick with this combo you have I'd probably go one or even two down on the mains and maybe pop the stock pilots in there. If you pop the stock pilots in there you may be able to open up the 2" hole and get some more ponies out of her with the same mainjet. Up to you but your within 1 or 2 sizes of being good. Very close now.
A good test if you so choose to do it would be this:
pop in stock pilot untape 2" hole, try and adjust for it. If still too much air, maybe keep DB installed
Keep stock pilot in there, cover hole go down 1 or 2(most likely on mains) or keep mains and try with DB killer OUT.
A good simulation is take out the DB killer with the hole taped up and turn the mixture screws to 3.75 or 4 if necessary to keep the fueling up. If still too rich maybe untape half the hole or all of it. At 4 turns out your in the same league as the stock pilots(37.5) at the stock setting(2.5 turns out). After 4.25 though the screws lose alot of accuracy. Another test is do the same thing but untape the hole and keep the DB killer in. Since you have a short pipe it's going to flow alot so even withthe DB killer in there you're still going to get lots of power. THe way I see it is that your mainjet is probably perfectly fine with the DB killer in and the hole untaped, however your pilots are weak(hence the off idle stumble). Try this before anything. Take the tape off, keep the DB killer in there and turn the mixture screws out to 4 turns which is a whole half turn from what you have now and see if that helps. If not you can go to 4.25, then it's up on the pilot. You will get more power out of the untaped hole then with it taped if the pilots can give enough fueling. Don't worry too much about smoothness yet we just want to see raw power. My guess is if you went back to the stock pilots at around 3-3.5, untaped the hole and kept the DB killer in you'd probably be spot on.(also the cheapest solution since you already have the stock pilots). You're doing awesome don't give up on us now!
Edit: Oh sorry, if you need to clean up the low end because of the leaner pilots, put the snorkle
IN but untape the extra 2" hole, that way it's just a step of extra air, not two steps. Also the snorkle in will smooth air intake especially at low rpms. I know with GEN1's they recommend snorkle out but since you have low end leaness/smoothness issues sometimes just putting in the snorkle with smooth/slightly richen the bottom end out, especially since you have a really free flowing exhaust. But if you do pop the snorkle back in the tape should be
OFF. Just this alone in conjuction with the 2" extra hole and a mixure screw adjustment may solve your down low leaness issues. Sorry my bad, I just picked up you had the snorkle out(duh on me).
Edit2: After taking another gander at your plugs, I believe I see some sootyness about halfway down the plugs to the bottom. It's kind of hard to see because I don't have the plugs in my hand. You did an excellent job of taking the pictures however there is nothing like having it in your hand for viewing. This re-inforces my belief that you are lean on the pilots but rich on the mainjet/needle. If you look at the top of the electrode you can see that it's very white(lean pilots) and about halfway down or just under you start seeing lots of colour(too much mainjet). So I think that what I was suggesting, take the tape off and richen up the pilots may help you out, especially in larger throttle openings. Maybe it might be worth it to give it a try.