Wow, something is really messed up. Typically the clock is fed from a power supply 'hub' that feeds multiple devices that are energized all the time. The fact that the clock is now tied to an ignition feed is a major problem. If it was just one thing I'd say troubleshoot and repair. But with the amount of work a "Tommy Tinker" has done previously, I'm with moparx that a complete new harness is in your future.