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There is a critical bug with Wordpress 2.6 (not a major headache actually ). Check out the full ticket at Wordpress development trac #7306.2.6 Permalink Defect
[...] 404 error appears on all permalinks when blog uses following permalink structure; /index.php/%postname%/. Clicking any post headings will give 404 error. Also archives /index.php/2008/07/ will give 404 error [...]
This issue arise if you set WP permalink structure to “/index.php/%postname%/“.
Workaround

Add some values in for the category and tag bases (Admin > Settings > Permalinks). The words “category” and “tag” will do just fine. As long as they are not blank, this should work around the bug. ~Otto42
More info: WP support forum → [Fix] 2.6 Permalink issues with “index.php”.
Might be interest
Probably a WP 2.6.1 patch → #8566 (by Mark Jaquith)
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5 Responsesto “Wordpress 2.6 Permalink Bug fixes”
Thank you! This was a big help.
Everybody else I found was suggesting changing the permalink scheme, which (imho) defeats the whole purpose of permalinks.
[Reply]welcome, glad it helps.
[Reply]thanks alot for the help
[Reply]Great! Thank you for sharing this!
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