ERIC87442 said:that was my first guess that i wired it wrong but its going the right way, they wires look old and crunchy haha so i think i may try the new wiring deal. i already cleaned up my grounds so im guessing some bigger gauge wires will do me...quote]
If the alt is a stock replacement, they usually don't start charging until they see 1K rpm. That's why when you first start it may only see 12 ~ 13V (fully-charged battery is 12.6V). Most folks don't see this unless they have a gauge and it's accurate and as most tap the accelerator / gun it right after startup it's a non-issue. And if the idle goes to low the voltage is going to go down, more so if accessories are on. You can also do a battery load test on it and the charging system - the local Auto Zones do it for free and they can test the state of the battery and the charging system. If the wires are crusty you can run new or clean & hope for the best.
For your lean misfiring and timing woes I hope you are taking notes with all these changing - seems like you're doing quite a bit and had it somewhat dailed in at one point.