I finally got the motor out and I found nothing wrong with the coupler. It was just the way I installed it, no broken key no slipping metal or busted components. The ticking was what I originally thought, the bolts of the torque converter and the motor bolts hitting each other.
I will call up the machine shop tomorrow to see if I can get the coupler adjusted so it grips the shaft better and to get a few holes counter-sunk so the bolts won't hit each other.
So here is my problem. My transmission won't engage into gear and I have to figure out why. It's the curst of the Automatic transmission, but I can't put in a stick so I need to figure out how to fool the PCM to function. I am searching online for any information of the Auto not engaging, and I think it won't because of a throttle position sensor missing.