Found the issue.
In some templates I had this:
In the $pagetitle chunk I just had: [[*pagetitle]]
In the $parentpagetitle chunk I had:
Which is useable by fastField
When any pages that were either folders or children that used templates with this command they rendered. When they were not either, they did not.
I changed $parentpagetitle to:
[[getResourceField? &id=`[[UltimateParent]]` &field=`pagetitle`]]
But it didn't seem to work.