Hated Jira and Confluence? Compared to what? Given that I find Jira to be perhaps the finest issue tracker I've ever worked with (compared to Remedy, Vantive, Scopus, RT, bugzilla and FogBugz), I would genuinely love to hear what tool you think is better than Jira? Particularly now that they can do advanced searching with JQL (Circa 4.x), I don't know of any tool that compares, particularly out of the box.

And, while sharepoint is a little more feature rich, and has better Office/IE Integration than Confluence, it also doesn't play particularly well with alternative platforms like firefox - I'd like to hear what your preferred Wiki platform is. I'm kind of a TWiki bigot personally, but if I had to drop a new wiki on a for-profit company tomorrow, it would probably be confluence.

You only mentioned "for-profit" companies. If money is the problem, Confluence is free for non-profits:

http://www.atlassian.com/software/confluence/licensing.jsp#n...

Right, thanks for pointing that out. I was actually coming at it from a different angle - Atlassian's support, and the ecosystem (at least in the valley) around confluence, make it (in my opinion, I'm sure others might differ) a better fit for companies that are willing to pay money than a tool like TWiki.

It's not as big a difference today, though, then it was 6 years ago. But, the thing is, Atlassian almost gives away their software (compared to what other companies charge) - so, to some degree, it's almost like comparing two free software packages with each other.

Confluence's real competition is actually sharepoint, more than it is TWiki.