if by QOS you mean the traffic shaper, it should work fine.
are you using 1.10 ? have you tried enabling fastforward to see if it makes any difference ?
the heat on the APU is distributed through the bottom of the case, it acks as a heat sink. mine is warm, but so is my cable modem

there are some discussions on the internet around APU heat where people did various tests, which will have better data !