I proudly patronize local businesses whenever possible-- especially when it comes to brick and mortar book shops. I love amazon, but there is something special about browsing *real titles on the *real shelves of a *real bookstore where you can talk with *real people. I find books I never knew existed when I do this.
Christian bookstores, on the other hand, are places that I go out of my way not to patronize-- because everyone knows they don't sell books. They sell creepy Jesus junk (which we have in abundance in this 100 year old church building we have inherited).
Let's face it: the Christian bookstore is dying. Christian retail is, frankly, a sort of quaint and old-fashioned idea. I didn't grow up Christian, but the CBA indie store in my hometown looked like a flea market and nobody could answer questions for me; I have visited worse -- stores in locations arsonists wouldn't bother to burn down. And at one time, it was at least a novelty to have someplace that would put your name on your Bible and had exotic items like "anointing oil" and those plastic fish the really-devout put on their cars.
Turk offers some great insights by comparing Christian Bookstores to Barnes and Noble. It is well worth the read.