That was just the first I thought of (not to mention the registry tweaks weren't always for cosmetic reasons, sometimes for performance). Also installing drivers and changing out cards was never fun. I'll still never understand why I need to remove my wireless card and plug it back in when I switch it out and in. I use to bring my desktop to college and home, at college I used ethernet, at home I used wireless. I would swap out my wireless card for my TV tuner card. That required endless software messing around with and not to mention when I reinstalled my wireless card it wouldn't recognize it till I reinstalled the software (which then required me to take out the card and plug it back in). Or as I learned, don't put the wireless card in until you reinstall the device drivers.

Another issue occasionally was installing programs, some of the software I used would never install fully, or it would and wouldn't work (since there's no equivilant of apt-get install which checks for dependencies). Though I think tha'ts the differnce between .msi and .exe