I totally recommend that you burn your EQEmu folder to CD/DVD, as it's always good to have a backup. Though I'm not sure why you'd then wanna reinstall and patch? Unless you're wanting to play EQLive, that seems unnecessary. Even if you do want to play eqlive, don't bother reinstalling. Just patch.
If you're going to backup your EQEmu folder, be sure to back it ALL up. Don't get selective and backup just EXE's or DLL's, as occasionally SOE makes a huge change to the engine that might render certain UI files and such incompatible. Back everything up, including contents of subfolders underneath the main EQ folder.
[Edit: I reread your post and see you're doing a new hard drive. If that's the case, there's no need to "install" EQ on the new hard drive -- just copy the folder from your DVD. EQ doesn't make any system files in Windows folder or anything like that -- everything it needs to play the game is self contained inside the EQ folder and its subfolders.]
BE SURE TO VERIFY YOUR DVD BURNED OKAY BEFORE TAKING THE BIG PLUNGE!!!
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