I've been a long time user of the standalone sitemap generator and I have run into an odd problem.
Save for the part of my site which is a Wordpress Blog, all other pages are indexed. These include a MediaWiki, a phpBB forum and a Coppermine Gallery.
Looking at the sitemap, it seems that when the generator runs, it does not recognize the link from the top level page to the /blog level below and skips it entirely.
I have had issues a long time ago with things and have sent you a PM before with the URL which has not changed. There is no login needed to get to the generator at this time.
Any assistance would be welcome!