I don't remember much of the ending, but yeah - Watanuki becomes the next Yuuko, and then it turns out loads of years have passed, and the Doumeki we see is actually "our" Doumeki's great great grandson, or something. Doumeki marries Kohane-chan, I think?

omg Tsubasa, yes! I bought about 20 of the manga, read the ending, and just could NOT figure out what in the world happened. Oh, CLAMP...