correct me if i misunderstood you so what you mean is that you have some element with class "tooltip" when the page load the first time and when you call $(".tooltip").tooltip() things work. but when you call ajax and load some more content (containing element with class "tooltip" as well) into the page the newly loaded elements do not have tooltip right?
if this is the case, this is because when you call $.tooltip it only applies to the element thats on the page already. if you add new content to the page you have to apply it to these new elements manually