The problem is in the code of the Onkyo xml file.
When a key contains a combined command like a code, then a delay and then a new code, then this key is misinterpretated by the tool when it recalculates.
I can see from the code that it is NEC32 with special repeat. Special repeat means that the main code is send first and then it is followed by a simple repeating signal as long as the button is held down.
The proper way to code a key with special repeat is as follows:
stIR="NEC:GlobalManual=1#IRSEQUENCE=NEC#BITS=101101000100100100010110111010011#ALTBIT=#MARKFLANK=560#SPACEFLANK=560#SPACE2FLANK=1680#PRESIGNALHI=9000#PRESIGNALLO=4500#Pause1=65000#Pause2=65000#Carrier=38#REPEATSIGNAL=1#Comment=NEC 32bits"