You can have a different Layout for Pages v.s. Posts v.s. the single home page of your blog site because the Template files can be different for each. The disadvantage I can think of, for sharing a single WordPress installation for both blog and CMS, is that you would have to limit yourself to a single Theme for both. You'll have to decide whether you can live with the same Theme for both the blog and main site. If so, you can have a single installation do both, and save yourself a lot of grief.
The same Theme really means the same CSS file for both. And a sharing of the header.php and footer.php files. Though, with some careful php coding, you can even work around those commonalities.
There’s a fundamental difference between using themes in a single WordPress intallation and the new WP 3.0 multisite. The themes you install (when enabled), are available to be used for ALL subdomain sites. So, if you customize your theme code for the main site (or a subdomain blog) – those changes will be in every site using that theme. This could be good or bad. Let’s say that you decide to add adsense code in the homepage of one theme. It would show on every site using that theme. If your intention was to have adsense ads on all the blogs on the network (because you can edit theme files and they can’t) – then this worked out just fine. But if you were using the theme on the home site only, and then another sub-blog user enabled it, they would have the theme with all the customizations you’ve made for just the home site.
However, there’s a way to enable a theme for just a blog(or site). Read this: http://wpmututorials.com/themes/enabling-a-theme-for-just-one-blog/
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