Sony only has home video distribution rights to Muppets Take Manhattan, Muppets from Space, and Kermit's Swamp Years.
But I doubt they own the actual movies. Whenever the deal with Sony expires, which predates the sale to Disney, those rights will be returned to The Jim Henson Company. Which will fall under the Disney deal, so than Disney will have the complete rights.
Anyone know more about. This is speculation based on similar situations. But Sony only released the second two films I listed. But owned by the Hensons right? Of course Sony had nothing to do with the actual production of Muppets Take Manhattan.... EDIT or am I wrong on that part.... Tri-Star did release the film originally, Tri-Star is owned by Sony now. I always assumed Jim owned his own films even if distrusted by studios. How does Disney have the rights to the first two films, and not those studios???