I don't think so.. I'm pretty sure that the email client will just refresh the mailbox it is displaying.. messages are then sorted by message-id or other if in the view settings.
We have had this happen in our current configuration cyrus as messages can sometimes get caught up in amavis running through filters for a second or so... they just appear and everthing is fine... <snip long text> > I'm not at all familiar with IMAP, would that cause any > problems with imap clients, having "old" unique-id's > popping <snip> > "new" messages have what appears to be out of sequence