Exactly.
They're manipulating/controlling distortion characteristics to give a pleasing sound. Even a so-called "clean" guitar tone has some degree of this going on. A truly clean guitar sound, like playing one through say a power amp and a 3-way PA type speaker would be pretty bland and lifeless....not musical.
And many would describe the impact of that type of rig on the tone of an EB the same. Just depends on the tone goal of the player.