Well, if previous cases where this sort of thing has been at issue are any indication, actually it will.
Previous cases have a mixed bag of fact patterns, such as being denied a church use permit in an area zoned commercial / retail.
A provision of RLUIPA bars government officials from imposing land-use restrictions that treat religious groups "on less than equal terms with" nonreligious groups.For "Ears" benefit, note that it is permissible to have land-use restrictions apply to religious groups.