A few months ago, I launched a code patch to AutotileLib that made it non-functional. Nobody brought this to my attention despite the fact that a number of people knew about it.
Seriously folks. There's a bug reports forum. Use it.
1.0c is out, and fixes a number of problems, as well as adds some requested functionality.
EDIT: 1.0d has also added the ability to automatically swap a turf's icon from a prototype variable called autotile_icon in turf/New(). This will allow you to better differentiate autotiles in the map editor because reasons.
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