I haven't received any feedback from the Etihad booking and I fly 7/7 out of Abu Dhabi. Guessing they're absorbing the fee or for new bookings only like you noted. But the hotel fee, they are definitely charging that because they emailed me. I copied and pasted some of that email below.
We would like to inform you that the Abu Dhabi Tourism and Culture Authority have recently announced the introduction of a new municipality fee and additional charge for each night of your stay. This will be applicable to all Hotels in Abu Dhabi and will come into effect as of 1st of June 2016.
The new charges will be as follows:
· 4% of the value of your hotel invoices as Municipality Fee
· AED 15 per night per bedroom of your selected room category.
The above charges are in addition to the existing current tourism fee and service charge which are as follows:
· 10% service charge & 6 % tourism fee.
We hope the above is clear, and please do not hesitate to contact us, if we can be of any further assistance. It will be our privilege.