If you read any review on the web from Microsoft?s dual boot how to, to WinMag, Win2000 Mag, and a lot of hardware review sites, it is common knowledge (for the more experienced users) you must put Win2k on it?s own partition. I?m very surprised you even managed to get it to boot into Win2k at all.
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now I just have to find a W2K compatible ISP and hopefully everything will be fine. 
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There is no such thing!
I agree that people should not bash others who are looking for help, but titling a thread Win2k is worthless or something to that extent, is misinformed on the part of the person who started that thread.
Just put it this way, my girlfriend was able to install win2k on her computer. All I did was till her how to install the OS, how to calculate the partition sizes, and follow the setup. Then I showed her how to install all the drivers needed (video card drivers, chipset drivers etc.), and then her software (Print Master, Greetings Workshop, Office 2k etc.) most of which she knew how to do already because she has installed software before. Her system in rock solid, no problems at all.
For me personally I have never had problems with Win2k, if I did it was never something that couldn?t be fixed with a simple solution. I?ve been using it for over a year. Lately I?ve been using (learning) Linux, which is a totally new world for me, because it?s not as user friendly as Win2k. But Win2k by far is not worthless. You may want to try installing it the correct way before judging it.
Read here for how to prepare for dual boot:
Before You Dual Boot
As far as using NTFS[5] in your home system, there is no reason why you can?t. In fact it is recommended that you do if Win2k is your only OS (for advance OS features). For dual booting it?s recommended that you leave a few FAT[16/32] partitions.
Read here for more info about NTFS5 vs FAT32
[EDIT]
Forgot to add:
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Half your incompatability issues come from this. >>
I have no compatibility issues whatsoever using NTFS5. Win2k, was specifically build to take full advantage of this file system. I suggest you read the NTFS5 vs. FAT32 article also.