I have been trying to get rid of this problem for over a year -- HTTP and mod_perl upgrades haven't helped.
My CGI programs occasionally screws up its output by a couple of bytes. I'd say it happens once every ten-twenty times. It is normally not noticeable unless it effects a hyper-link, data or Javascript code.
I've upgraded httpd and mod_perl (last was 6 months ago) but the problem remained. Possibly its a Linux or some stupid programmer problem. Worse, I can't find any references to this problem -- but I am not sure what it would be labeled as.
The first step is to be able to reproduce the problem. Without it I doubt we can solve it.
For example you could try to stress test your application with ab or a similar tool, recording the received length and comparing it with an expected one, if it's losing bytes, or doing a full comparison if the length is fine, but the data is corrupted. It's also possible that it's a bug in your browser, so I'd use a command line tool to verify things.
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