Well I finally got around to doing some work on it in the last few days, been very busy with school.
Put in a new clutch, tranny still whines a bit so I'm going to try the Moly grease trick and ride it till it dies.
Got the motor back in and all was going well until I went out to my dads place and he wanted to try my battery in an old truck, he very nicely put my battery back in and connected it backwards
Fried out the alternator, luckily I'm working at a Starter/Alternator repair shop for my Practicum!
Gave me a good excuse to paint the engine compartment while the fan shroud was out, and put in new Pertronix distributor and carb. Got my fenders and hood all back on, and did the "front" electrical (turn signals, headlights). NOT fun on a '66, amazing the differences between this and my '65.