I won't use the 3" ports. Thanks for that advice.

I cut out a large cardboard box to give the sub a quick test. It was pretty funny. The box did in fact vibrate and shake a fair amount. Also just a little bass. My trunk shook but extremely little.

I cut out all the wood for my actual box and it all fits together pretty well, I also cut the subwoofer hole and the hole for the cup. Both came out pretty good. I'll work on it more later this week.