I imagine Apple is furious. They paid Lodsys in good faith for a license. Hopefully now they are rewriting the API to get around the patent. Then they can tell Lodsys to go fuck themselves.
There's no proof that Apple paid Lodsys for this patent. It's almost certain that they have a licence for it from a previous deal with IV who was the previous owner of this and many many other patents. Lodsys can't sue Apple so they're trying to do so indirectly by threatening the ecosystem.
You're probably right, and what's more, it's likely they didn't license this patent specifically, but rather it was included in a family of patents for which they negotiated a license fee.