What I have seen is not desirable behavior, but I don't know where the issue is.

Here are the details to reproduce.

Start vanilla  emacs
(removed my .emacs and my .emacs.desktop but not my other stuff like
.emacs-places .emacs.bmk .emacs.d).

Says
This is GNU Emacs 23.2.1 (i686-pc-cygwin, GTK+ Version 2.18.6)

Type
C-x f ~/foo.org
seems to start org mode

type
* foo <enter>

type
C-c C-x C-i
inserts
CLOCK: [2010-09-02 Thu 01:26]
when my windows clock in Win 7 is showing 1:26 AM
They match. My Win 7 is in PST (Pacific) time
So far so good.

Exit emacs

Now do the following

Start vanilla emacs
type
C-x f ~/foo.org

type
* foo <enter>

type
M-x display-time
modeline shows  7:29 AM
when my PC is showing 1:30AM
They don't match.

Type
C-c C-x C-i
inserts
CLOCK: [2010-09-02 Thu 07:30]
Now the clocking in org mode is gone bad.

Basically it looks like usage of the display-time changes something to affect org clock functionality. Also, I don't understand where the modeline clock value for display-time is coming from.
FYI Today is September 2 2010

Org-mode version 6.33x
GNU Emacs 23.2.1 (i686-pc-cygwin, GTK+ Version 2.18.6) of 2010-05-08 on laptop

I've been using org mode for about a month now and really like and use the clocking feature. Thanks.
The reason I ran into this was I was investigating using
http://funcall.posterous.com/displaying-a-daily-org-mode-agenda-reminder-i

-Antony

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