Diacritics components in wrong position in instances

If I have 2 masters, Light and Bold, then if Scaron Light, automatic alignment is enabled, but in Scaron Bold, automatic alignment is disabled, the resulting interpolated fonts have the positions wrong.

The preview in facts shows the correct position when viewing any interpolated instance but the end files are wrong (both instance .glyphs files and font files).

Can you send us the file (just the S, caron, and Scaron will do)?

Just tried to reproduce the effect and noticed in the previous file the anchor in the other master had been accidentally deleted. My mistake!