This seems to imply that if you take a board such as a PC motherboard that has had thousand of hours of usage and bake it, you may get slightly better supply filtering. Or bake a a surface mount switching supply and the switching noise may reduce.
Does anyone know much about this effect?
Motherboards use ceramic capacitors mostly for decoupling (where actual capacitance doesn't matter much). Where the capacitance matters, they usually use polymer capacitors or electrolytics, or ceramic capacitors with slightly higher capacitance because they also have to consider the effect on voltage on the ceramic capacitor.
There's lots of plastic parts on a motherboard that would be damaged if you "cook" the motherboard at 125c, it's hardly worth the effort. Like I said, that +/- 2.5% is nothing, even +/- 10% is considered in advance when designing a motherboard.
Switching power supplies (and I'm thinking of ATX and similar computer power supplies when I say this) have even fewer ceramic capacitors and again, besides some very specific places (frequency setting, or to prevent oscillations), the actual capacitance is not really important, i'd say even +/-20% would be ok for ceramic capacitors.
There are switching power supplies or dc-dc converters which run at much higher frequencies (1mhz+) and on such power supplies the minimum capacitance may be more significant..