Lets start with some really annoying ones. Close the lid on the laptop and the screen goes off, open it again and the screen does not come back on. You have to put it to sleep and wake up again. Also sometimes (seemingly random this one) once the screen goes into power save it wont power back on, sleep and wake job again for that.
Gaming, vista uses huge amounts of CPU for no reason, constantly. You would think this would stop when you load a game, but it doesn't, rendering said game unplayable.
Outlook is so slow it is unusable, same outlook in XP runs fine.
When you connect to a wireless network, you have the option to set it to home, public or something else I dont remember. Basically when you set it to public, it shuts off file and print sharing. On my home network, I set it to home, but for some reason it made it public anyway. No worries, go to network on the start menu, you have a yellow bar at the top, click it and you have the option to make the network private from now on. Click this and it works, until you disconnect from the network, then it makes it public again.
The picture viewer, scroll through your photos and it doesn't scroll in order, seemingly it just picks any photo at random from the directory and displays it.
Slot in memory card from digital camera or phone, it complains that it needs to be checked because it is damaged, check it, it 'fixes' something, but unplug it and plug it back in and you have the same error again.
No longer have the option to choose which pics you want to sync form your camera, it simply does all of them.
Windows sidebar, randomly dissapears.
loopback interface is very slow. I run apache/mysql servers for testing, when viewing localhost loading time is slow, accessed from a remote machine though and it is very fast. Who knows what the reason is for this, but the same thing on XP loads at the same speed locally and remotely.
Thats just to name a few.
As for software issues, the following apps do not work.
Nero 6 (apparently 7 does work, but its a bloatfest)
VC poker
Netstumbler
Notebook hardware control
Diskeeper
PerfectDisk
eBay turbo lister
On the upside for vista, wifi is far more stable. Seems to drop all the time in XP, never dropped once in vista. The way you connect is better too.
Aero glass is exceptionally pleasing to the eye.
New explorer layout is very nice, shame its so slow.
Instant search is very nice, shame it takes your soul to run it though.
General moan I have is that the silly control panel is very slow, and confusing to use, too many menus and options. Something simple takes ages.
L337 L00X where is the original picture in your sig from? I have the top half of her in a 1680 x 1050 wallpaer. I want her bottom 
Half.
