Ok, so I finally got around to pulling the carb off my bike, and checking things out. Here's what I found...
The pilot was tight, and is a #55. The main was also tight, and is a #175. The slide has a #7 on top, don't know if that matters. The needle clip was on the second from the top, which would make it one notch leaner than stock for the Pro-Circuit pipe. The float level looks good, stop air flow through the inlet when the float is almost perfectly level with the bottom of the carb.
I fixed the overflow tube while I was in there too. It was broken off at the bottom of the bowl, and plugged to stop fuel coming out. I drilled the brass tube out of the bowl and pushed in a little length of carbon fiber tubing I had, the only thing I could find that fit. I don't know how the gas is going to effect it yet though, but so far so good.
So, the only thing out of place is the 175 main jet, as opposed to the 172 stock. I did go ahead and drop the needle down to the last notch to lean it a bit more, and it seems to run better now. It still needs the idle screw bottomed out on the carb body to idle though, and still loads up when it runs slow, but not nearly as bad as before.
I also adjusted the air gap for the pickup next to the flywheel. I don't know what the '89 is supposed to be (I really need a manual

) but I read where a guy was having trouble with a 2006 running bad and pinging, and they told him to widen the gap to 0.039", and that seemed to work well for him. So I set mine to the same thing, and ran the bike again, that helped as much as dropping the needle did. It idles SO much smoother now, and seems to run better with more power. I think I'll leave it alone as it is now, unless someone can tell me more about the main jet, and the air gap for the pickup. Any idea why someone went with a larger main jet, and why the bottom end is still so rich if it's got the stock pilot jet in there? The air screw on the carb doesn't seem to help, only makes the transition better or worse, I ended up with it between 1 1/3 and 1 3/4 turns out.