Here's my two cents(all that I have).
There is nothing wrong with the factory headunit and the amps. There put out a descent amount of power at I think a 1 Ohm load.
The problem with the stock system is the speakers themselves. It is very hard to have a speaker with only one cone that can produce anywhere near 20 -20,000 Hz at higher volumes, without creating a ton of distortion and/or causing the Doppler affect.
What I did to solve this problem is I bought a $20 pair of 6x9 3-ways from Walmart. They have a much better frequency response than stock, also, they have a descent sensitivity rating. And they play alot louder than the bose ones. I think that I may have lost a little bass, but I made up for it ten-fold in the higher frequncies.
My suggestion to you is to just replace the speakers. Try to find some that have an efficiency/sensitivity rating of 92 db 1w/1m or more.
Replacing the HU may get a little expensive(depending on what you choose). It's up to you whether or not to change the HU. An aftermarket HU may draw a little too much attention, potencially leading to theft and/or damage.
Rex wrote:Keep in mind one draw back (in the stereo wolrd) to the Q is the gas tank over the rear axle. This isn't really too big of a deal with sub frequncies being non-directional, but you will see some db loss due to this.
Another problem is that the trunk is sealed. Meaning that the bass frequencies will not traverse into the passenger compartment very smoothly. This will cause it to sound muffled and distorted. I would suggest porting the sub into the compartment somehow. Either mounting it in the rear deck(use trunk as enclosure), or mount the sub where the rear arm rest is(This would probably look pretty good), or put a TUNED port in either the deck or behind the arm rest.