Namely, the JS implementation is missing isLigature check, and adding it seems to fix the issue for me (testing with the foobar glyph mentioned earlier):

diff --git a/src-js/fontra-core/src/glyph-controller.js b/src-js/fontra-core/src/glyph-controller.js
index 7a689e928..8c3a97725 100644
--- a/src-js/fontra-core/src/glyph-controller.js
+++ b/src-js/fontra-core/src/glyph-controller.js
@@ -907,9 +907,10 @@ registerRepresentationFactory(StaticGlyphController, "propagatedAnchors", (glyph
     compo.anchors.some((anchor) => anchor.name?.startsWith("_"))
   );

-  const closestToOrigin = hasReceivingAnchors
-    ? findClosestToOrigin(glyph.components)
-    : null;
+  const closestToOrigin =
+    isLigature(glyph.name) && hasReceivingAnchors
+      ? findClosestToOrigin(glyph.components)
+      : null;

   const componentAnchors = glyph.components.map((compo) =>
     !hasReceivingAnchors || compo === closestToOrigin
@@ -921,6 +922,10 @@ registerRepresentationFactory(StaticGlyphController, "propagatedAnchors", (glyph
   return glyph.anchors.concat(componentAnchors.flat());
 });

+function isLigature(glyphName) {
+  return !glyphName.startsWith("_") && glyphName.includes("_");
+}
+
 function findClosestToOrigin(components) {
   // Weird heuristic, but matches glyphsLib
   if (!components.length) {

Some base glyph advances seem to incorrectly zeroed #2507

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