This behavior is like a BUG from the user point of view. If a SolderMask for example (or any other Draw Object) overcomes the Manufacturing Outline, this Soldermask get disapeared from Fablink. The report shows the exclusion but the desired behavior should be different because, the Draw Objects related to a symbol get cutted instead draw objects are completely deleted. The exclusion report merges the cutted and the deleted items as they were treated in the same way.
Please refer to https://support.mentor.com/en/knowledge-base/MG54156