UPDATE: I would really like to find a solution for this.
I seem to be saving ink by only plugging the printer in when I need to, but I found out that it won't work to hot-plug it in, you need to plug it in and then re-boot for it to work again

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It is usually done by jumper rather then a setting as the 5v for the port has to be physically connected to the 5v standby of the powersupply.
Less and less machines are doing it now because of the plethora of USB port powered crap like lights and mug warmers and cellphone chargers etc that dont report there power usage so result in the port being overloaded.
Actually that helps alot. I found this in the manual for the AK38N:
USB Power-On Setting (JP4)
AK38/N or AK39/N provides two jumpers to set USB device which connect
to Extended USB connector headers to power-on system.
Place jumper cap on JP4 pin 1-2 for enabling USB device power-on function
on Extended USB connector headers.
Pin 1-2 (+5V)
Pin 2-3 (5VSB)
I quess I should just test it out and see what happens, but if I am reading this correctly, JP4 should be capped on Pin 2-3.
Question 1: This won't have ANY effect on the USB ports on the PCI expansion card, correct?
Question 2: The mobo has a pair of USB ports on the back plane, and another two pairs available from header pins. From your knowledge of Engrish, when it says JP4 controls the extended USB connection headers, is it referring to all the mobo USB connectors, or only the header pin ones and not the backplane ones.
Sorry for the ignorant questions . . .