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The reason I got rid of it is I thought it looked a bit out of place. I've been migrating from tables to div's and CSS, and I've heard of the possibility of laying your code out differently than it actually displays on the page. Would something like that work to get my heading (and the rest of my content) right next to the body tag, but allow all the templated navigation to show up before it as far as display?
However, there are plenty of sites out there that are doing well in SE's where the headline / title is not the first thing on the page - many have several table opening tags and main navigation code before they get to headlines and bodytext.
There are several other factors that could possibly be affecting it.
One thig i have noticed that many don't mention is that - just because your site may drop a few places doesn't always mean you have done anything wrong. It could simply mean that a few sites that were below you have done somthing right.
Hope this helps.