Yes. Just need to set your grid to the tile size used in MZ, which is 48x48, I believe. There's also a correct layout for tiles, so probably best to take a sheet from the default assets, load it up in GIMP, clear it, and use that as your base. You'll know if you've screwed up because things won't be laid out correctly in the editor, and stuff you place won't appear when you playtest; at least that's what I've experienced in the past.
Autotiles and what not have their own rules which I'm not sure about.