Like everyone else, I highly recommend playing with GWX 3 (or one of the other supermods like NYGM), it makes the game a lot better.
There also a lot of mods out there that greatly improve graphics. One of which is the High-Res fix which makes it possible to play sh3 on higher resolutions.
Also be sure to check out the waterstream+exhaust combimod v2.3, and if you have a fairly fast / new computer, try FM New Interior.
You might also want to have alook at this thread:
http://www.subsim.com/radioroom/showthread.php?t=179694
They're making a new supermod for sh3 that looks incredible. It's not out yet, but I understand it won't be too long for the first release to come out.
Here's their website with screenshots and clips:
http://www.u-boot-hahd.com/ubootwebsite/
And here's a pic of the mods I'm currently running through JSGME. (The ones on the right are activated)
