Do crystals have stronger intermolecular forces than amorphous solids?
Diamond crystal has much stronger bonds than amorphous red phosphorus. Amorphous sodium/calcium silicate, known as glass, has much stronger bonds than crystalline metallic sodium. (Also, in all four cases the word intermolecular doesn't really apply, because these compounds are not made of molecules.)

You see that the answer depends primarily on the particular compound, rather than on its being crystalline or amorphous. In cases when something can be either crystalline or amorphous with the same chemical composition, the bonds in both are pretty much the same, as explained in the comment by Jon Custer.

Oh, and yes, chemical and physical properties of pretty much anything are explained by its structure.