72 340 - What Did We Miss

reread OP. I noticed he stated they installed a new orange box. If it's one of those fake chinesium orange boxes, it wouldn't surprise me if they have issues from that, too. I saw a YouTube video, where the "transistor" on the outside was fake. Just a shell, no guts, not connected to anything!
Put a points distributor in it, rough time it like I suggested and see if it works.

I noticed that too, lots of people having issues with the Mopar boxes for years now. It might be worth a shot putting that old MSD box back on. If the timing marks have indeed been verified with a piston-stop tool there's no reason mechanically the timing would read something that it isn't, since a timing light reads the ignition pulse and shows that directly in relation to the crankshaft. I'm betting it's some signal or electrical issue...