For just basic maintenance parts like spark plugs, wires, rotors, pads etc... Rockauto is the only place I use. Best prices, foolproof ordering system, lots of pics and breakdowns of the parts they have, great brands, no having to deal with a dip**** behind the counter at the local box store.
For performance parts... take your pick. Lethal is a good one as was mentioned, LMR/CJP/AM are all good ones. Just make sure to do all your own research and don't trust stuff like "our mustang experts" or whatever the dude on the phone tells you is good for your car. Research research research, ask questions online first, join forums, use Google etc... For big name performance stuff like forged rotating assemblies or whatever, Modular Headshop is a really good one to go with. MMR... I have never personally ordered anything from them and therefore never had a chance to have a problem but a LOT of guys have had issues and from some of the responses I've seen literally right from MMR reps I would personally never order from them. YMMV.
2000 Mustang GT Steeda build #48. Bolt ons, suspension, Novi 2000.
Just because I give you advice, doesn't mean I know more than you. Its just means I've done more stupid ****.