- some surnames are mixed case, others are all caps. Why the difference? If there's a logical reason, ie main lines versus collateral lines, you'll want to indicate that at the top of the page.
Also, you may want to reconsider having the states abbreviated. I say this as a genealogist myself.
When abbreviations appear, people take every possible opportunity to misinterpret them.
I also noticed that you didn't have a link to the master index on your home page, but did have a link for the surname index. You may want to add a link for the master index to the home page.
The link for www.geneocity.com
doesn't resolve properly - you'll want to fix that link. It's currently set to go to http://www.geneocity.com/secondsite/www.geneocity.com
Have you thought about adding some statistics? ie how many people you have in your database and what date ranges they include? You already have a very nice map there, so it seems logical to me to add that.
When you're done, you may want to consider submitting it to Cyndi's List - but then, you may have already thought of that.
Keep in mind I'm a genealogy buff and a nitpicker, too.
Other than that, it looks good. I like the lack of clutter - looks nice and clean. Good layout.