I'd be surprised if Yii offered much more than CI in terms of functionality. CI is pretty robust, and we've used it for some massive projects (including two live TV voting sites) and it's taken the strain easily. Good community, easy, quick development, robust (it's been around over 3 years now).
@orwellian
I'm pretty sure the code is commented using a standard format so you could parse it with one of those API doc generators and create a documented version of the API?
Well I'd say that CodeIgniter covers the majority of uses very well, but if your needs are more specific/complex it may be worth looking elsewhere. As for flexibility isn't that a subjective issue?