4 Spd slight grinding when shifting.

Here is the situation.

CAR:
1970 duster 440 4 Spd. Built 6 years ago 2008 couple thousand km put on it since build. New clutch linkage, new centerforce clutch and pressure plate. New pilot bushing. When built.

Car drove fine when built. And was good for years

The trans was a used 1965 4spd. Shifted well, but tail shaft seal and bushing needed to be replaced. The tail shaft bearing caused a wobble to the shaft.

Took the car this spring 2014 to get tail shaft and bushing replaced. When I got the car back, I noticed the car would slightly grind gears as I shifted and got worse as it heated up. I tried adjusting clutch linkage, to no avail. Asked my shop about it, they said they never touched the clutch or bell housing or linkage when the removed trans for rear tail shaft bushing.

As I was parking the car to store it, I noticed it was being stuck in reverse. Had to pull really hard to release it, and it was grinding really good going into gears.

Had a friend push clutch while I watched the disk from under the car. The disk disengages when clutch pedal is pressed. Unfortunatly I didn't try spinning the disk when it was pressed.

I pulled the tranny the other day. Thinking the pilot bearing is bad. It looks ok, but I didn't measure.

What could the issue be?

Thanks to all members in advance.