Confused on setting up my domain in a campaign

[rfwood]

I have a website that is www.example.com. When I first setup my campaign in SEOMoz, I missed the instructions that stated I need to set up my domain as it appeared in the browser. Thus, I set it up as example.com. When I realized my mistake, I setup a second campaign as www.example.com and am running them side by side to see the differences.

My question has to do with the best setup. I have a blog that is a subdomain as blog.example.com. It appears that the www.example.com campaign is not crawling the blog pages but example.com is.

Are there any downsides in setting up this campaign as example.com? I have a number of other sites with the same issue so would like to get this resolved before I setup the additional sites.

Thanks for any assistance or insights into ways I may be "shooting myself in the foot" with the wrong domain structure in my campaign settings.

[Salmat]

Rather then re-invent the wheel, I just came across the following post that had a good solution to campaign set-up. Hats off to Cyrus Shepard

Hope it helps.

http://www.seomoz.org/q/keyword-difficulty-report-vs-rankings-report

[rfwood]

Thanks Daniel for pointing me to the post. Cyrus's recommendation was to setup two campaigns. Unfortunately, I am dealing with 6 sites we own and over 100 that we have built and provide assistance to. So setting up 2 campaigns for each URL would not be a good solution for us.

So my question would remain...with our domain structure of www.example.com and blog.example.com is there one best way to setup only one campaign (take up 1 slot)?

BTW, as I mentioned in my original question, I currently am running two campaigns as an experiment (www.example.com and example.com). The first (with www) has had 13,286 pages crawled and the one without www 13,263. So there does appear to be some "downside" to leaving off the www. However, it is very important that we include our blog(s) in the results.

Thanks Daniel for taking the time to get me started in the right direction on this issue.

[MeganSingley]

Hi rfwood! This is Megan from SEOmoz. From what you've written in your question, it sounds like example.com would be your best bet. By setting up a campaign as a root domain, we'll be able to track all of your subdomains, including blog.example.com.

Hope this helps! If you have any other questions, please let me know!