ive had it happen without changing scene. but it could have been from it being destroyed by asteroid then rebuilt or something like that.
I stopped using them since it made my logistic unreliable, but when i did notice the issue it was usually permanent until id delete and manually replace the combinator then rehook the wires.
I think its a similar issue to the transformator mod where the core object has sub object as part of it that get added / removed at the same time when placed in a normal fashion, but when its built from a ghost post destruction, they end up not being added back so the functionality break down.