A team member is porting over documentation from a .org wiki that will be placed on the company's root domain. The problem with MadCap is that it uses frames as well as javascript navigation. Has anyone encountered this problem before?

I'm unfamiliar with the software and the project is pretty far into the pipeline at this point (I'm new at the company as well). Any advice on work-arounds or alternatives would be greatly appreciated.

Check out Screaming Frog - It's an SEO spider that crawls your site pretty quickly - giving a multitude of useful seo data - including response headers. Two drawbacks: 1) it costs roughly $130 and 2) it has difficulty crawling sites with more than 100K pages. I believe Audette Media is coming out with an industrial strength crawler this summer but don't have a lot details yet. Hope this helps.