Then there's the whole GUI design aspect. Who is designing the GUI? Do they have a clear design when they start or are they making up the design (and changing it) as they go?
I find that this is the biggest concern, personally.
Good programmers are not
ever necessarily good UI designers. You need to have someone sit down with the users, or, preferably, an internal user proxy who understands the business needs well, and design a UI, without any regard to what the back end looks like.
When integrating the two, you may find inconsistencies, and while this might be a real problem, more often than not, it's a miscommunication between the users and the developers, and can actually help to find "real" issues.
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