Lack of sleep is really bad for misophonia, try getting her to sleep earlier and getting her to have a good night sleep so she doesn’t need to sleep in to half ten. Do you take anything for your sniffles? I use a nasal spray and sometimes apply vix to the chest on a night time.
A boss with misophonia needs to be told to make an effort and try meet you half way. Try and apply humour if you can to do this.