AweN64 is, in my opinion, the best Nintendo 64 emulator available for Android.
Because all Nintendo 64 emulators are based Mupen64+AE, AweN64 has all the same great features with one exception ... NO ADS!

As of this writing I am running a 3 year old HTC One M8 and a generic PS3 controller using Sixaxis controller.
I tested about a dozen of my favorite games and all ran without any issues.