Hmmm.... as a repair shop manager, I will say this: If it weren't for 98-05 VWs and Audis, we would likely be out of business. If you need an alternator, they cost about $200 and you have to remove both fenders and front bumper to get to it. A/C compressor? Same thing. Want to change the timing belt? You have to remove the mount bracket from the engine - which doesn't sound too bad until you realize its the size of a gorrilla's fist and it has to twist and turn out through a space of about 3/4". Then you realize that they engineered it so that the tensioner doesn't retract far enough to get the new belt on. You have to remove the cam sprocket and the tensioner, then jockey the belt, the tensioner, and the cam sprocket all at once in that same 3/4" of space with only two hands.
Then let's talk about check engine lights. You'll get tons of them. Your first one will be for secondary air injection. You'll discover that the 20-cent thin brittle plastic tubing they used for the air pump has disintigrated. You'll also discover that it has a very specific snap-on O-ring fitting that can't be replaced with plain hose. Then you'll realize that the only place you can buy it is at the dealer and it costs almost $200. My cost is $180.
Then your transmission will fail due to several factors. First, the solenoids and/or valve body will take a dump. It will burn up the clutches in a matter of a few miles. Then you'll take it to a transmission shop and they'll groan and whine about how hideously awful they are to build (which they are) and they'll charge you accordingly. You'll say "heck with this, I'll buy a used transmission and install it myself." Then you'll realize that they cost about $1100 from a salvage yard and more often than not they already have the same problem yours does.
You'll probably have a constant lamp warning that tells you that your brake light is out even though it isn't. You'll have to replace your ABS module, and even the rebuilt ones are $400 and often require reprogramming.
If you decide to install an aftermarket stereo, you will most likely fail emissions. Not kidding. VAG COM has a circuit in the OBD2 connector for radio diagnostics. In the absence of the factory radio, it gives 12v to a pin in the DLC which can (and has) fried a few scanners including our shop's Genysis. At best, the stereo will prevent communication with the OBD2 protocols. At worst, you'll fry the windows-based software at the emissions inspection station.
That brings me to the suspension. The front suspension has 8 control arms, each of which have windowed rubber bushings that fall apart. They are not replaceable. Each one also has a ball joint which is also not replaceable.
Good luck replacing front axles. Most stores don't carry them, or they say they do and they'll send something completely wrong. They are held on to the transmission with 6 funky 12-point female torx bits that almost always strip out. I gave up on VW front axles when I got the part number by the VIN and ordered them... only to find out they were totally different than what was installed in the car. There are VWs made in Mexico, Brazil, and Germany. Then you have mid-year splits, different transmissions for different engines, and evidently random drunken fun at the factory, all of which mean that axles change with the moon phase.
All of the interior trim is coated with something that smells like crayons and turns into chewing gum after a few years. All the black stuff will come off of the stereo and A/C buttons leaving them bright white and un-labeled. The door handles will do the same.
But, the good news is, it is a buzzy, whiny, squeaky rattle trap that is a horrific bore to drive. But wait, there's more... since every college girl thinks they're just faboo, they fetch three times what they're worth!
Sorry. [/soapbox] Good luck with your Beetle.