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Simplest answer would be to check if you have clamp overlap checked under the geometry tab of the bevel modifier.The other day I opened the Defiant I had started a while ago . . . learned a bunch since then, and also tried out a new paneling method on the warhead. It involves applying all the modifiers in the stack, deleting half the mesh, and adding a mirror modifier again. Then in this order: Edge Split, Solidify, and Bevel. Cut panels with Knife tool, mark those edges sharp, and boom, non-destructive panels that can be easily re-done or changed.
Not currently very visible since I haven't worked on the materials yet.
Sorry to bring this back from the past, but I have been trying this method and can't see a thing (the hull looks clean and smooth like baby skin). Could you elaborate on this method for paneling, please? It's a really tedious part that always introduces shading problems when don with bevel and extrude.
Thanks a bunch!