My favourite 3D mario is and will probably always be Mario 64. Other 3D mario games have done a lot of things better than 64, but the feeling of playing 64 has never been recaptured. I can still pop the game and feel amazed by the worlds and the gameplay 
If I had to make a list it would go like this:
1) Super Mario 64
2) Super Mario Galaxy 2
3) Super Mario Sunshine
4) Super Mario 3D Land
5) Super Mario Galaxy
Nothing against Galaxy, but Galaxy 2 was heaps better than the original (to me), which put it barely above Sunshine (I must be one of the few people that really loved Sunshine and it's challenge).
Current PC Build
CPU - i7 8700K 3.7 GHz (4.7 GHz turbo) 6 cores OC'd to 5.2 GHz with Watercooling (Hydro Series H110i) | MB - Gigabyte Z370 HD3P ATX | Gigabyte GTX 1080ti Gaming OC BLACK 11G (1657 MHz Boost Core / 11010 MHz Memory) | RAM - Corsair DIMM 32GB DDR4, 2400 MHz | PSU - Corsair CX650M (80+ Bronze) 650W | Audio - Asus Essence STX II 7.1 | Monitor - Samsung U28E590D 4K UHD, Freesync, 1 ms, 60 Hz, 28"
