I don't know what kind of area you live in but the first thing I would put on it is an alarm and some other kind of anti-theft device. My last car (and also my 1st Honda) was a stock 95 Civic and I loved it because it was really clean, low mile, and well maintained. Unfortunately, it didn't last in my posession.

Aside from that, if your just looking for cosmetics just give it some nice wheels

and maybe a different grill since u want to remove the emblems. I did that to my new one and changed the headlights and it looks great.