you must have been using mostly jensen audiovox or other junk from wal-mart if you think 88 era factory speakers can hold a candle to decent current aftermarket car audio.
infinity speakers that come with the amped system in our cars are 2 ohm speakers. the amps are designed to play into that load to make all thier power. if you connect an aftermarket speaker to them they are almost always 4 ohm- you get half the power out of em, and they just wont sound very good- the only exception is infinity ( go figure) they went to a 2.65 ohm coil in all of thier full range speakers 2 years ago.
if you want to replace them with aftermarket speakers, i would definately bypass the amps- 2 ways to do it.
cut the plug that goes into the amp off of the amp and use the 2 middle wires- those are the signal wires from the headunit, the outer 2 are power and ground for the amp itself.
or you can just buy adaper plugs- metra makes them- plugs right into the factory harness and give you the 2 speaker leads marked for correct polarity.
if you really want that car to sound GOOD id replace the front speakers with a 5 1/4 in component set( bostons rock, alpine, jl audio and jbl also sound good- not too expensive either). mount the woofers in the facotry locations, get some dynamat, and apply it to the doors- that stuff really works. mount the tweeters in the factory location. use the crossovers that come with the component set. do not mount crossovers in the doors- they dont like to be slammed when you close the door. use the wiring behind the radio to go into the doors for the woofers, run wires from the tweeters down to the crossover and then run wires back to the amp
replace the rears with a good quality pair of 6x9's- dynamat the rear deck too. and run the whole setup on a 4 channel amp- alpine makes a nice one thats 45x4 can be had for under 200.00 and has a really clean sound quality
do a single 12" sub sealed, about 300 watts of power, firing back against the trunk wall.
set crossovers on 4 ch at around 100hz, low pass the sub at around 75 hz.
you'll be flat out amazed at the sound- you'll never want to listen to factory systems again.
if you shop carefully and choose wisely you can spend under a grand and have a killer system that brings a smile to your face every time you crank the volume
i was a proffesional certified installer for over 10 years, ive done countless setups like this and they always sound good.