I am using YAM 2.9p1 with mos3.9 on a Pbook and experiencing missing emails in the incoming list.
It says 4 new emails and only displaying 2 off them in the incoming list.
When I go into another list let's say trash and go back into the incoming list they appear like magic.
Never had this before with yam.
Also people complain when I send a reply to a email the structure off the email message is changed,not in logical order anymore.
I did try simplemail ppc but that was even more buggy or should I try the 68k version?

Using YAM everyday on my Peg2, I never had this kind of problem.
Anyway, did you try to re-index your YAM folder? (the option is available from YAM menu).

This reindex option did the trick! Thanks