The way the collision process callback works has changed significantly and now works as originally intended.

The World level quadtree is no longer created, they are now built and ripped down each time you collide a Group, this helps collision accuracy.
Bodies are no longer added to a world quadtree, so have had all of their quadtree properties removed such as skipQuadtree, quadTreeIndex, etc.
QuadTree.populate - you can pass it a Group and it'll automatically insert all of the children ready for inspection.
Removed ArcadePhysics binding to the QuadTree, so it can now be used independantly of the physics system.

src/utils/Debug.js

@@ -683,7 +683,7 @@ Phaser.Utils.Debug.prototype = {
     * @param {Phaser.Sprite} sprite - Description.
     * @param {string} [color] - Color of the debug info to be rendered (format is css color string).
     */
-    renderSpriteBody: function (sprite, color) {
+    renderSpriteTouching: function (sprite, color) {
 
         if (this.context == null || sprite.body.touching.none === true)
         {
@@ -733,6 +733,42 @@ Phaser.Utils.Debug.prototype = {
 
     },
 
+    /**
+    * Renders just the full Sprite bounds.
+    * @method Phaser.Utils.Debug#renderSpriteBounds
+    * @param {Phaser.Sprite} sprite - Description.
+    * @param {string} [color] - Color of the debug info to be rendered (format is css color string).
+    * @param {boolean} [fill=false] - If false the bounds outline is rendered, if true the whole rectangle is rendered.
+    */
+    renderSpriteBody: function (sprite, color, fill) {
+
+        if (this.context == null)
+        {
+            return;
+        }
+
+        color = color || 'rgb(255,0,255)';
+
+        if (typeof fill === 'undefined') { fill = false; }
+
+        this.start(0, 0, color);
+
+        if (fill)
+        {
+            this.context.fillStyle = color;
+            this.context.fillRect(sprite.bounds.x, sprite.bounds.y, sprite.bounds.width, sprite.bounds.height);
+        }
+        else
+        {
+            this.context.strokeStyle = color;
+            this.context.strokeRect(sprite.body.x, sprite.body.y, sprite.body.width, sprite.body.height);
+            this.context.stroke();
+        }
+
+        this.stop();
+
+    },
+
     /**
     * Renders just the full Sprite bounds.
     * @method Phaser.Utils.Debug#renderSpriteBounds
@@ -762,16 +798,7 @@ Phaser.Utils.Debug.prototype = {
         {
             this.context.strokeStyle = color;
             this.context.strokeRect(sprite.bounds.x, sprite.bounds.y, sprite.bounds.width, sprite.bounds.height);
-            this.context.strokeRect(sprite.body.x, sprite.body.y, sprite.body.width, sprite.body.height);
-            // this.context.strokeRect(sprite.body.hull.x, sprite.body.hull.y, sprite.body.hull.width, sprite.body.hull.height);
             this.context.stroke();
-
-            // this.context.strokeStyle = '#ff0000';
-            // this.context.strokeRect(sprite.body.hullX.x, sprite.body.hullX.y, sprite.body.hullX.width, sprite.body.hullX.height);
-            // this.context.stroke();
-            // this.context.strokeStyle = '#00ff00';
-            // this.context.strokeRect(sprite.body.hullY.x, sprite.body.hullY.y, sprite.body.hullY.width, sprite.body.hullY.height);
-            // this.context.stroke();
         }
 
         this.stop();