Until further notice Lufthansa will be flying both the LH400 and LH404 to JFK with their A380. As they pull their A380 from the tokyo route until further notice. So on a good day you might catch both of them instead of the 2 747's.
Lufthanas currently has 5 A380's the Frankfurt, Munich, Beijing, Tokyo and New York. They currently fly to Beijing, Johannesburg, New York, and Tokyo is off the routes for now. 3 cities 5 planes. Also I know I just flew back on a 747 just a 1.5 week ago from frankfurt, and went to fra on a a380. It is just a matter of their flight plan. When SFO and MIA in May and June gets the a380, we will see it go back to the lh404 747 and the lh400 A380.