I am also having this problem. Same versions (WP 4.1.1, ACF 5.2.0).
I have extra fields on my custom taxonomy terms, and the fields on the edit-tags page will no longer appear.
This is a pretty huge issue, as I can no longer edit content appearing on my site.
Attached are similar screenshots. The first one is what I want, and the second screenshot is what the rules change to after I click ‘Update’
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