wongkev: I also keep getting asked to run the game in administrator mode even though I have changed the .exe to run in admin mode in the properties.
That's because the game is running through DOSBox, not Windows. If there is a way to set the shortcut to the game to run as administrator, or to set dosbox.exe to run as administrator, that might help.
You might also try changing the install directory... if you install outside of Program Files, then running as admin may not be necessary and it also might not mess around with your savegame location. Program Files has extra security so sometimes savegames get sent to the virtualstore, whereas if you install outside of Program Files the saves should not get redirected.