With help from Richard Moreland, I found my MobileOrg settings were wrong.
 I had 'Index File' set to Mobileorg/index.org when it should have been just
index.org.  Thanks for the help.

On Wed, Aug 25, 2010 at 11:29 AM, Jason Schadel <jason.schadel@gmail.com>wrote:

> I set it up using the Dropbox option.  When I try to sync, it only syncs
> index.org, mobileorg.org and agendas.org.  I looked in the checksums.dat
> file and noticed that those files are the only files that use 'md5' to
> generate the checksum.  The other files use 'shasum'.
>
> I've tried removing all the files and pushing them again but every time
> mobile-org just syncs index.org and mobileorg.org.
>
> After syncing, emacs shows the new items but after a push from emacs and
> resync on the iphone, the items disappear on the iphone.
>
> I'm using version 1.3 of mobileorg and org-mode version 7.01trans.
>
> Any ideas?
>