I wanted to see what my system does if I pull everything out but the CPU and panel control boards. On start up, all data and address lights, plus INTE are lit. After doing Stop + Reset the address lights are off, all data lights plus WAIT, MEMR, M1 and W0 are lit. If I flip the switch to run, all the address lights go on with A13-A15 flickering. All data lights plus MEMR, M1, STACK and W0 are lit. When stopped, I'm able to use the examine, deposit and single step switches.
It looks like what you are seeing is normal when the CPU is running and there is no RAM installed. You seem to have a problem halting the CPU. You should check pins 71 and 72 on the bus, RUN and READY respectively, to make sure they respond to the run/stop switch. If not, check the signals working back from there in the circuit until you find the problem. Also check the bus for shorts if you haven't already.