Hey Monster, I saw your post in my other thread mentioning that you completed this mod... I went out to measure mine but as you know it's impossible to get to with the rear wheel on. I can measure the next time it's off, but in the meantime I reviewed my last video and took this snapshot of the pin in its stock position. It's close.
Did you drill exactly in to the center of the pilot hole that was there from the factory? If you did that and tapped it deep enough and the base of the pin is flush against the swingarm (torqued to 33nm, actually), you should be fine. After completing this mod myself recently, I took my 848 to the track for a full day of riding and experienced absolutely no problems.
You should be fine...