Add the MegaSquirt 99-04 Mustang Plug and Play MS3Pro system to your list. It is like a poor man's Haltech or Motec that uses an OEM factory wiring harness and if you are interested in factory instruments (can't imagine but...) it drives all of them!
The really cool part is the pricing ($1,349) and the use of the OEM Ford wiring harness and the OEM Ford sensors. The 99-04 Mustangs used a camshaft sensor to pick up #1 TDC firing. You can do the same thing with a modified distributor. The MS3Pro supports all types of dumb coils and smart coils (dumb ones are cheaper) in their COP or coil near plug implementations.
The beauty of the OEM harness is you don't have to build it! Its construction will last longer than your car and the connectors (which usually bankrupt the project budget) are already attached to the harness by Ford.
Check out all the other stuff the MS3Pro PnP system offers, like traction control, knock detection and control, engine failsafes etc. click here =>
99-04 Mustang PnP and don't forget that they are the only manufacturer to offer a lifetime warranty on the system. Did I mention they are really inexpensive?
Ed