We didn't arrive at our hotel until 2am last year. We had no problems, and it was nice getting our room number ahead of time so we didn't have to stop by the check-in desk. I would recommend doing online check-in and there is an option to put "After Midnight" as your arrival time. If you don't do online check-in, I'd call the resort and have them note your late arrival in your reservation. Better safe than sorry!
When booking flights, the cheapest flight didn't arrive until 1215 am. I went back and forth on what to do for awhile. Should we stay at the airport, should we just do a value for one night? We decided to splurge a little and just stay at the same hotel the entire trip. It was actually cheaper than flying in any earlier, so that's pretty much how I justified it. And it was nice to not have to be up and out of the room by 11am. We knew we would want to sleep in since we got in so late, and we did. By the time we went to bed it was probably after 3 am. I woke up first and I thought it was still the middle of the night (great curtains at AKL). It was almost noon! Glad I woke up when I did, we had an ADR at 130!