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The console overlap check and the MCP check_overlaps tool counted crossing points, so a part contained in or stacked on another reported no overlap. Both now list pairs from PartOverlapChecker.FindOverlappingPairs, which uses the Intersects verdict and skips cut-off parts. Plate.HasOverlappingParts stays for now: two test files outside this change still call it. Co-Authored-By: Claude Fable 5.2 <noreply@anthropic.com>