The ending for the anime season ended in Sakura and Syaoran (or was it shaoran?) at an airport. The manga ended in Sakura racing to the bus stop to hand over a teddy bear and a couple of years later seeing him and hugging him again.
Personally I prefer the manga, the anime version seemed weird to me. It was awkward, unlike a quick runaway on a bus with tears. XD So which one do you like better?