The GNUstep user defaults is in the file ~/GNUstep/Defaults/.GNUstepDefaults.
You can check your time zone in directory: $(GNUSTEP_ROOT)/System/Libraries/Libraries/Resources/gnustep-base/NSTimeZones/zones/. For example, eastern Ameirca should be in the time zone of American/New_York. You can also calculate your GMT+/-.
Use defaults to change the time zone:
defaults write NSGlobalDomain "Local Time Zone" "America/New_York"
Check your ~/GNUstep/Defaults/.GNUstepDefaults. There should be:
NSGlobalDomain = { "Local Time Zone" = America/New_York; };
Or you can use this command to read the user defaults:
defaults read NSGlobalDomain "Local Time Zone"