What workplane do the extrusions reference? Has that workplane been rotated at some point? You may need to rotate it by a large value, say 5-10 degrees in order to get to rotate it back "flat". Alternatively you might be able to use Edit Work Plane and reassociate them with a new Reference Plane. If the angle difference is tiny it might work, but usually Reference Planes must be truly parallel to reassociate things to another Reference Plane.
If you can upload a copy of the family, it would help to take a look at the family itself.
Steve Stafford
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