Some ideas in life are truly ridiculous. Time travel, teleportation, a universal language. And if I said to an alien 'we've strung 6 wires to a very high tension to some wood to make music' you may well get a funny look. Yet its an instrument that has shaped the world of music. More importantly though is something you may not have considered - for such a widely used instrument, is every single one different? Its a silly question, but the answer is undoubtedly yes.
As I've probably said recently I bought a Fender Jaguar not that long ago. I went to the shop, tried it out and knew it was the guitar I wanted. Sadly, though I didn't have the money to pay for it there and then. What bothered me the most was that someone else might buy it because I knew that the one the shop got in to replace it wouldn't be the same.
Guitars are a very personal instrument in that they really are all different. In some ways they're a lot like people. Without going into the depths of human biology, it is commonly known that no two children (even coming from the same parents) are entirely the same in personality. There is no difference in a guitar. You can put the same pickups, body wood, neck wood, strings, into two guitars and they won't sound the same - you needn't go to a shop to try that one out!
Lets look at this a little further. Start with the wood of the guitar. Even if two supposedly 'identical' guitars are made from the same wood type, perhaps even the same tree they will give out a different sound. The density of, for example, maple varies from 0.6 - 0.75 (103 kg/m3) so every tree will be rather different sounding! Take into account that when the wood is shaped this will have some alteration to the make up of the wood again modifying the sound.
Pickups and other electrics will change the shape of your tone. The way in which a pickup is wound changes the tone. Because the pups are wound so minutely and how the tone is 'picked up' (as such) is through a slight change in the electromagnetic field around the pickup any even slight alteration to the coiling is going to make a difference. The electrics themselves are again pretty fragile and slight resistance caused in the tone and volume pots (and the wires it should be said) will alter the overall output of your tone.
But lets move away from the science of it all. Truth be told each guitar feels a little bit different as well even if they came from the same factory and were made by the same worker. I'll reiterate - guitars are a personal instrument, there is some feeling about them and you certainly form a relationship with them. Why do you think people keep guitars from the 1960s? Sure its partially because they sound rockin' but moreover because people don't want to part from. They become an obsession and a part of you.
You may not believe a word of what I've just thrown at you, but if you don't, just think about it for a minute or so. There's more to a guitar than meets the eye I'll tell you that one for sure.
Peace, Linus