Well, it has been a few months, but I will throw an update in here since I did get this working now.
The retainer clip that holds the e-clip in place is pretty easy to remove if you take the slide clean off the bike and take the throttle cable out of the slot it lives in. This way you can rotate the clip around and get behind it through this same slot. Realizing this made the process a 30 second deal.
Raising the needle 2 notches (as far up as it will go) fixed my tuning issues. I was quite concerned about why it would be this far out in one direction, but I also realized that this slide and needle came from a different carburetor from what is on the bike, so it is possible that they were jetted slightly differently.
Still, adding the air filter was the final step in making it run just about as perfectly as I could have hoped for. Without the air-filter I still get the occasional miss.
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