I'm sorry to here the deal didn't fall through, was that the DK cabinet on craigslist? (I live in your neck of the woods) so to answer your question(s) first off:
Cab is gutted but looks ok, is there anyway to post pics to see what we are working with? At first you wanted the DK machine got the DK jr so your not set on a specific game but want to restore it?
Now think about these two things its very important to know what it is you want to achieve with the cabinet before spending any money cause you want to make this cost effective as possible. If it were me I would ask do I really like DK Jr to invest 4-7 hundred in a full restore, or is there a different Nintendo game like, DK, DK3, Mario Bros, Popeye I would like more.
Now the next step is to when restoring how thorough do you want to be? Do you want this to look like the truck dropped the machine off at your house in the early 80's before it ever saw an arcade or do you just want it presentable enough to keep the gf/wife off your case? If you are doing a complete restore "Donkey Kong" Re manufactured pieces of high quality are easy to get a hold of, if you are just looking for used pieces such as Marquee/Control Panel Overlay/Bezel that are acceptable keep an eye on Ebay and the Arcade forums and start collecting early that way by the time you get to it you will have them available.
I don't really care much for the price of Mike's remake control panels, that's $100 in the toilet on the project right off the bat, but i guess it depends what you have and what you don't. Making the control panel is a very simple process but if you don't even have the CPO/Buttons/Joystick/Control Harness/ Or lock latches then Milkes is your best bet, if you have some of that equipment then we can help you rebuild one from scratch with pics & Measurements.
On to the stripped cabinet, what is your experience with Arcade machines? do you have the experience to fully wire in a Jamma harness with a switching power supply? If so I would take the opportunity to do so and with good detail, this will help you in the future plugging in any of the games you want most recommended for the vertical screen is the 60 in 1 PCB. I understand it has an LCD in it now but if your going to do a restore why not find a Sanyo EZ monitor rather than buying a different LCD then later on buying the Sanyo EZ if you decide you want the machine more authentic.
I thinks its great you want to do a restore on the cabinet and there is lots of resources all over the net on doing so but ultimately what I wanted to do was throw some ideas out there for you and help you grasp a little more of "Exactly" you want to do, if you don't have your mind made up you will waste time and money so in the meantime setting up mame is a Great idea till you got it figured out, though if I remember you stated the guy had an Xbox with LCD so... that tells me VGA JPac would be needed if there were an arcade monitor you needed to connect to, I believe you would need the Ipac to wire up the joystick and buttons to the PC
Anyways hope that gives you some insight! Good luck and let us know if there is anything else you need!