Cleaning it with isopropyl will cause a cooling action too as the alcohol evaporates and takes with it excess heat. You could probably confirm that by adding a small heatsink.
Does the chip feel warm under operation? If not, it could be possible that one of the connections is ever so slightly fractured. As the system warms up, it causes the fracture to expand slightly leading to weird errors. reflowing the sockets connections on the motherboard would sort that out, hopefully.