I just revisited the same experienmce with 6.35e.
All of my links give the same results but one example is

[[file:apoptosis.org::*Topics][Topics and Ideas]]

Paul Schlesinger
"... the justification for a physical concept lies exclusively 
in its clear and unambiguous relation to facts that can be experienced."
A. Einstein Kings College 1921


Message: 26
Date: Tue, 6 Apr 2010 16:51:19 -0500
From: "Paul Schlesinger" <pschlesinger@wustl.edu>
Subject: [Orgmode] Org 6.35
To: <emacs-orgmode@gnu.org>
Message-ID: <D143A93005DA4A1188B9D6AACC1846B1@galileo>
Content-Type: text/plain; charset="iso-8859-1"

Just down loaded and install 6.35 from web site. Running XP and emacs. When trying to follow link I get an error
ShellExecute failed.  Moved back to 6.34c and everything works fine.

Paul Schlesinger
"... the justification for a physical concept lies exclusively 
in its clear and unambiguous relation to facts that can be experienced."
A. Einstein Kings College 1921
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Message: 27
Date: Wed, 7 Apr 2010 07:56:27 +0200
From: Carsten Dominik <carsten.dominik@gmail.com>
Subject: Re: [Orgmode] Org 6.35
To: Paul Schlesinger <pschlesinger@wustl.edu>
Cc: emacs-orgmode@gnu.org
Message-ID: <173993FA-28EB-4E19-B48F-C18ABA4E170F@gmail.com>
Content-Type: text/plain; charset=US-ASCII; format=flowed; delsp=yes

Hi Paul,

can you please post the link that causes problems?

Thanks.

- Carsten