As I am now moving onto my second s2000 and "starting over," I figured now is the perfect time to start a build thread to track my progress and changes.
MY05 New Formula Red
I wasn't planning on selling my AP1 because I had been thoroughly enjoying it, but a deal came up for the exact year and color s2000 I wanted. A 2005 car in New Formula Red with only a little over 56k miles. Being as I live near-ish to Seattle, I was going to get a hard top and it had one already. Everything original and no issues. Excellent interior. The worst part of the car was how many rock chips there were and the abundance of paint swirls, which I will eventually correct. I couldn't be more excited.
With this car, I wanted to keep it simple and avoid "over modding" or constantly changing things up. The priority was to keep learning about the car, becoming a better driver, and to have fun.
2/2/2016
Here she is on the day I took her home, sitting next to her predecessor. The car came with a K&N FIPK, Forbidden-USA Mugen-style hard top, Megan Racing coilovers (will switch to previous set up), Skunk2 Megapower exhaust (also switching), and headrest speakers. All of these types of mods were what I was essentially going to do to the car anyway, so it was a huge bonus with the purchase.

The first thing I did upon bringing her home was installing my Moddiction Anvil Shift Knob. After the 70 mile drive home after purchasing the car with the OEM shift knob, I was reminded of how much I disliked it. Moddiction's shift knob is probably my favorite mod on the car. For such a small, interchangeable part, it makes such a big difference in how the shifting feels. I highly recommend the Anvil (I preferred the circular Anvil over the taller, oval shaped Anvil 2).
2/4/2016
The next change I made was swapping my cleared AP2 headlights and clear CR side markers for the original ones the car came with. With the help of a couple buddies, I DIY'ed the headlight change with JS2K's clear diffusers. This was by far the worst modification I have ever done. It was a huge PITA. However, it was worth it in the end because it came out looking nice and I love the look.
2/6/2016
As I was planning on running my previous wheel set up, I needed to roll my fenders to be able to fit them. I took the car to a local fellow s2000 owner (shoutout to Manga_Spawn!) and had him roll my fenders all around. The wheels are WedsSport TC105N. Fronts are 17x8+42, rears are 17x9+35. Wheels are wrapped in 245/40/17 and 255/40/17 Hankook RS3s.

2/8/2016
After getting an alignment, the weather unexpectedly became very nice (it had been brutally raining for many days in a row) and I was able to enjoy a top down day.

2/10/2016
The first key change I wanted to make to the car was to get an AP2 lip for the car. After previously dealing with a replica AP1 lip (too difficult to find OEM) on my Silverstone, it was an easy choice ordering new and OEM. Also installed my Modifry dash mount and phone bracket. Very convenient and handy.
2/16/2016
I received and installed my OEM AP2 lip (purchased from Bell Honda dealership in Arizona. They have direct purchase links on eBay). As it came with all of the necessary hardware, including already attached weather stripping, the installation was pretty straight forward. Just for reassurance, I did find installation instructions online

The exhaust that the car came with was not my cup of tea. I previously knew that a company like Skunk2 made very loud exhausts, but I didn't quite know how loud. The Megapower exhaust on my car had the silencers on it and it was still too much for me. The drone was also irritating. On my silverstone, I had a UK mod (44 mm piping) stock exhaust combined with a 63 mm Berk test pipe. The sound of this set up was perfect so I swapped exhausts. The catalytic converter bolts on my NFR were pretty gross and had some substance stuck on it.

2/20/2016
After some delays and removal of parts to revert to stock, I sold my silverstone to a local buyer. It was sad to see her go, but I had a lot of fun in my AP1 and learned a lot about the car.
Here is how my NFR sits now:

As for future plans, I'm still not really 100% sure, but I'll be continuing to keep track through this thread. Thanks for reading!
Current Modifications
Exterior
OEM Berlina Black Hard Top
OEM Front Lip
Clear DC2 Sidemarkers
Cleared AP2 Headlights
Tamon-style FRP spoiler
Downforce 1x1 CF Side Diffusers
Engine/Exhaust
K&N FIPK
Tanabe Medalion Touring Exhaust
APR Carbon Fiber Cooling Plate
Wheels/Suspension
Volk CE28N 17x10+45
Hankook Ventus RS-3, 255/40/17
Rays Engineering Anodized Bronze Lug Nuts
Buddy Club N+ Coilovers
Accessories/Electronics
Moddiction Anvil shift knob
Alpine Headunit
Custom Headrest Speakers
Subwoofer and AMP in trunk
Modifry Dash Bracket and Phone Mount
JS2K Keyhole Covers
Parts on standby
J's Racing CF Rear Diffuser
Berk 63.5mm Test Pipe
Downforce 1x1 CF Front Splitter for AP2 Lip