I have a similar problem on a 4000T. All the boards show up on power up but the boards will disappear on a reboot after the machine is warm enough. I replaced the Buster 9 with a Buster 11 and replaced the power supply but it does the same thing. I did notice that my Buster socket is warped. It bulges in the middle of 3 sides. I plan on getting a new one soldered in and the caps done (minor leaking just starting) to see if it fixes it but haven't got around to it yet. The 4000T (and 4000) look like the Buster socket is cheaper than the 3000(T) sockets.