You have to be clear about what the "extended warranty" is. Many dealers have their own extended warranty, which has a whole host of terms and conditions, which sometimes include servicing beyond that of what the owners manual requires.
Then there is a "Volkswagen Factory Extended Warranty" (which is still underwritten by an insurance company - Allianz I believe) which has basically the same terms and conditions as your original factory warranty. $1000 sounds too cheap to be this one, which is why I mention this.
http://www.vwwatercooled.org.au/f15/...nty-28828.html <-- Check out this thread in the MKV Golf forum.
You can purchase this warranty at any time during the initial 3 year period. You can also purchase it from any dealer, and therefore it's best to get it from the one offering it at the best price at the time.
Whilst it will be cheaper to purchase it when you get the new car, if for no other reason than inflation, you have to think about whether you intend to keep the car for 6 years or not to benefit from it. If you sell the car, it might be a selling point, but probably not enough to cover its cost. Or what happens if your car is, god forbid, written off after a year. Then you've just paid for something you can't use. You could account for this in an "agreed value" insurance policy (which I'd strongly recommend regardless).
Anyway - just some thoughts

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