Personally, I'd prefer a bit of a recess, even if just for the additional clearance and height adjustability. If the recess is finished to the same color and sheen as the rest of the body, it really doesn't look objectionable. It just looks like it's supposed to be that way. A lot of guitar makers just paint the recess a flat black, but it doesn't have to be that way. Others (such as the Les Paul Axcess) finish the recess just like the rest of the body.
You can see on my Jackson below that my bridge is very low. If you saw it in person you'd see that the bridge is really just a hair higher than the surface of the body. The recess allows the adjustability I need, and allows for a little pull up on the bar, if I want to do that.
But, it's your choice, of course.
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Good point. I hate the flat black in that area. It should match the body....






