I am building a site that will (obvisouly) have a front end public portion that I want to drive with Concrete5, but then it will also have a members section that I would like to build with Code Igniter.
Does anyone have any idea how I could do that?
I guess I could just throw the Code Igniter code into a sub directory, but would I run into any issues with that?
i can't see why not.
As you suggested a separate folder on the site would be one solution. (you might have to tweak the .htaccess file (if you are using one) to ignore the other cms/framework
Another solution would be to have separate subdomains, eg example.com and members.example.com