Hotel tax and sales tax on short-term rentals

[Jarrod Williams]

I am trying to get my barrings straight on taxes, fees, etc. associated with short-term rentals.  In my state short-term is considered less than 30 days.  According to my reading once classified as a short-term stay I am required to collect sales tax (6%), hotel tax (8.5%), and a state fee (1%).  Many questions in regards to this:

Most of my stays are over 30 days.  If I have someone come for 1 week and then return to the normal longer stays do I just charge the taxes for that single occupant or does that make my entire unit subject to the taxes or is it some average of length of stay?

The occupant is supposed to pay the fee.  If I roll the whole thing into the rent and don't specify the taxes is that okay?

Anything else I should know that I am missing?  I have been unable to find much information regarding this stuff.