So I'm a little perplexed at the day job. We are offering products done through dye sub printing. We're printing our stuff via PS CS2 and through an Epson 4800 printer. We've been doing this for a few months and everything is going good.

When I came into work on Monday I noticed that all my shortcuts & preferences were erased in Photoshop on my computer. Every once in a while it happens for no reason whatsoever so I didn't think anything about it. When I goto print something, the colors are coming out different that how they did. I've checked my print & color settings, and nothing in there has changed. Ironically the color is coming out better than it did before.

There is only 2 of us in the company and I know nobody was on my machine over the weekend. Did PS do something over the weekend like an update that could cause everything to change?

I have had Problems with colors cast in prints from CS2. When it happened I had to delete my Photoshop Preferences and let Photoshop build new default preferences.
Photoshop has a startup shortcut key to help reset ones preferences. For some reason your Photoshop Preferences where reset that is why your customized preferences and keys went missing. When Photoshop is working well I alway backup a copy of my Photoshop so I can recover then if for some reason Photoshop reset my preferences. On a Windows system each user has their own set. There is a tree that Microsoft Hides by default where all user ID stuff is kept Microsoft also move location from windows version to window version. In Windows XP the tree is "Documents and Settings" There are several places Adobe store preferences for cs2 there in "c:\Documents and Settings\Your User ID\Application Data\Adobe\Photoshop\9.0"

Ah cool, thanks!

Looks like I'll be backing up my current preferences then since I like how the colors are coming out.