For a while I've been using pine 4.64 and the fancy threading features. Not being a fan of full threads (it's easy to lose track of the flow when your mailer is busy trying to display it all as a tree structure - I guess this is part of the appeal of gmail "conversations") I use OrderedSubject, as it's very similar to what Mail.app provides me, a style of threading that I like very much.
But pine's was annoyingly different - it would sort the message view by order of the first mail in the thread, rather than by the most recent mail in the thread, causing replies to old threads to be way off my main screen (and thus me missing said replies).
However today I found the fancy threading patch to pine, which fixes that (as an option). So I'm a happy camper today.