How is the USB3300 resumed when the clock is not ON?
See the section “Exiting Low Power Mode” in the ULPI specification. Briefly, the LINK should asynchronously assert STP and hold it until the CLKOUT signal is turned on and the DIR signal de-asserts. STP is applied asynchronously (because there is no clock at the time) but must be de-asserted synchronously to the CLKOUT signal.