When I get to the gameplay, the cursor is not seen and it looks like it's flickering?

what game are you referring to overseer or something else. If it's overseer - is this version 2 installer dvd version.
the flickering could be your driver as overseer at times does not work with the latest video drivers especially the nvidea ones.

start with editing the tex.ini file to make sure lock video is set to "1" & not "-1" this usually helps with a mouse .
don't run dual video cards also.

you may have change your graphics driver, I had a problem with my driver at one time & the whole screen had lines all over it & once I went back to a previous version it fixed the issue. I think from memory I used my on board graphics rather than the nvidia driver to over come this problem.

oh because that's the problem that I have, the intro/part where you talk to chelsee plays fine but when I get to tex's office, the cursor starts freaking out

now is the change to a previous version something I do on my graphics drivers properties or from the options menu in the game

what graphics card do you have & what driver are you using as I have the same thing happening if I use the nvidia driver
when I change to onboard graphics this flickering goes away. If you don't know these details go to control panel in windows & under system look in device manager & click on display adaptors .

is this the flickering you are getting
https://dl.dropboxusercontent.com/u/21372568/VID-20140109-00000.3gp

I have found a way to fix the graphics problem on windows 8, there is a program that i have found called 3dripperdx which allows me to play without any graphical problems so if you want to play it on windows 8 then this is the program to get

http://www.deep-shadows.com/hax/3DRipperDX.htm

Sorry to bump this old thread, but I'm playing Overseer now, got the midi working (with VirtualMidiSynth), got the movies working with the updated ffdshow, and got the textures OK with the dgVoodoo drivers.

Only thing still bothering me is this flickering (arrow) cursor. The ingame crosshair cursor is fine. When it turns into an arrow it dissapears and only appears when I move the mouse. Very irritating!

You said: "when I change to onboard graphics". Where exactly do you do this?

-- EDIT --

I noticed that when you change the ingame resolution to 480 * 640 instead of 600 * 800, the flickering / disappearing of the arrow cursor is gone... It does not change a lot to the game. game windows will be just full screen and the menu will be bugger (so will look a bit less "high res"). But I prefer this 480*640 view with a "stable" mouse cursor, to be honest.