Like HISSIN50 said you should really decide what you want the car to be in the end, in other words, what kind of driving you want to do? A cruiser, a drag race car, an autocrossing car etc. because modifications may differ (especially with respect to suspension) between them. Then decide on your budget and make a list of all the modifications you will need to get you there.
There are some mods that work well regardless of what type of driving you do.
First make sure you have a good distributor cap, rotor, spark plug wires and spark plugs. Then bump your timing from the stock 10 deg. to 12-14 degrees this is certainly worth a few hp. But, like others have said the aftermarket ignition boxes won't help at this point.
Next, if you are just looking for some mods that will make more power, I would probably start with the exhaust. The stock exhaust is fairly restrictive and any changes you make to it will give you some power now and make any future modifications more effective. Plus it gives your car some personality. With the exhaust consider the noise level when getting mufflers and if you are going to be doing street driving get an H-Pipe or X-Pipe with catalytic converters.
Then, you can get a larger MAF and Air inlet tube like the one C&L offers. The MAF is easily modified for different fuel injector sizes if you change those in the future.
As far as cams go make your decision carefully. The stock cam is actually pretty good. And if you go with a higher lift cam it can effect idle quality. As in you may need to turn up the idle speed to about 1000rpm to keep it from surging at idle and eventually dying. Many (including me) have had this problem with the E303 cam ford sells.
As for the rest suspension and wheels/tires are highly dependant on the type of driving you will do. Better heads, and intake manifold will make you some good power but again the exact ones are dependant on the final goal of your car.