I'm usually OK with the number of towels, I just wish at least one of them was a decent size. For those of us of a "larger figure" it is rare to find one which can be wrapped around the waist.
I'd also go along with the dim lights in the room. I know it's a money saving thing but sometimes it can be too dark to work or read properly.
TV remote controls. Why are they always so complicated? All I want to do it turn it on to have some CNN as background noise.
Breakfasts. I'm not a big breakfast eater so I object to paying $20 or more for two slices of toast.
WiFi in higher-end hotels. Need I say more?