Rather than have other hunt and peck for possibly trivial flaws, it would be super helpful if you would use some sort of software tool that allows you to mark/circle the bits of interest.

That "black nail" looks more like a plastic cover to me that may pop off, but I have never seen that in a game... and after that I gave up when the next pic I could only see some small scratches on a plastic.

You may have some actual pinball problems, but I gave up there...

I'm pretty new to pinball and I am only a recent owner of a NIB machine as of last year.

That being said; if this were my machine I wouldnt accept it as is.

If that is brand new, it’s a real shame.

Normal - it's on all of the Wonka's. If you don't add the post to the hole below it, the ball will probably sometimes get stuck in the hole that the black cap is covering. Under the black cap is another location for you to put the extra post if you want. Most people just use the hole that is not covered.

As KingBW said, the black cap by the outlane is normal. It provides a second location for the optional post you received with the game. If you want to use the optional location, push the cap out by pushing a thin tool up though the hole from under the playfield.

For the secret machine issue, are you referring to the black part that turns? If so, there is an adjustment for it below the playfield to lower or raise it. Check out page C-34 of the manual. Loosen the lock nut (item 10 in the diagram) and adjust the height with the a adjustment screw (part 1 in the diagram) until it is flush with the PF. Then tighten the lock nut.

Contact JJP about getting a new ramp. I would not like to see that on my brand new machine either.

You really need to talk to your distributor before messing with that insert. It should be flush with the rest of the playfield.

Are you sure your not feeling the mylar edge by that insert? The edge of the mylar is exactly where your circle is drawn.
Not that u sld have to but the spot on the ramp cld be flame polished most likely and it wld fix it. However if u haven't ever did it I probably wldnt recommend it and just get a new ramp sent. Only issue is there's alot of stuff connected to that ramp that will need to be changed over. My ramp is not as clear at that same spot and I'll probably flame it when I shop my game out.

Awesome I figured that was the case..... its a awesome pin thats for sure. Still playing mine just as much as I did 5 months ago when I picked it up.