I have been using Accordance for a few years now, and love it - especially with the addition of the Info Panel and other recently added features!
One feature I'd love to see added would be to have a simple way to scan texts to automatically find and link to scripture passages references. This would be especially helpful when reading everything from on-line religious articles to complex doctrinal statements; any text that contain a number of Bible references, without supplying the text of the verses themselves.
The Bible software I used before Accordance performed this easily by offering a pop-up empty window into which I could paste whatever text from my clipboard. The text would automatically be scanned for references and then as I read through the article I could simply hover over any Scripture reference and the Bible text would be displayed! It was very simple, but very useful.
I realize that this is similar to the "Auto Link" feature when creating a User Note or User Tool - but I would love to see it simplified to a discardable text window (or as an option for opening PDFs / ePub files) for the ability to easily read any religious materials.