Either choice is pretty good but I opted for the SATA. I chose a firmtek seritek 1V4(supports 4 drives) paired to a 500 GB Hitachi Deskstar (7200 rpm, 16MB cache) and have been VERY pleased! It's way fast( I zeroed out all 500 GB in 2 hours with Disk Utility) and since the 1V4 is actually a backwards PCI-x card it can travel with me to my next Mac. Other firmtek options are the 1S2 (supports 2 drives and about the same price as all the others)or the 1VE2+2 (supports 2 drives internally and 2 external hot swappable drives). Anyway, lots of choices and not to much cash outlay (I'm out less that $300.00). I guess if you already have a big drive (E-IDE) I'd go that route otherwise I'd go with the SATA (new technology that can only get faster, just look at the Western Digital Raptor X SATA) since it is on the upswing while I think IDE is slowly headed out. Either choice will keep you in good stead. Good luck, I agonized for better than a month before I finally picked.
Cheers,
Chris
G4 466 "digital audio", 1.5 GB RAM , 30GB HD(OS X only) Mac OS X (10.4.6) Pioneer DVR-111DBK , FirmTek SeriTek 1V4 , Hitchi 500GB SATA II HD