I got a chance this morning to check the linkages. Only one was on point, and two were off by 10mm+. I haven't had a chance to run the car yet to confirm that this was the issue. I did check the back of the pump and I see that #2 in the picture is there and the spring on the left side of the throttle is there, although I didn't confirm it was attached to anything on the bottom. When I get back from church this afternoon I will confirm whether those two things are operational. Thanks for all the help thus far.

One more thing while I'm here. I plan on removing the factory intake. This isn't for performance, or noise, it's because this engine is being prepped to be transplanted and the factory intake isn't coming along. What I want to know is if I run the crankcase vent to atmosphere via a "road draft tube," what do I do with the old oil drain from the separator in the intake? Does this just get plugged off somewhere? Again, I did a search and didn't find this aspect mentioned when people went the expel to atmosphere route. Also, I don't mind running a cheap separator if this a better solution.