There is a great Developer Zone article that addresses running DOS and Win16 GPIB applications on Windows 95/98 and WindowsNT at:
http://zone.ni.com/devzone/conceptd.nsf/2d17d611efb58b22862567a9006ffe76/0bb66dab3253244e86256804006a96ba?OpenDocument
Here is a small excerpt of that article...
Running DOS Applications Under Windows NT
To run your existing DOS GPIB applications, load the special GPIB device driver gpib-nt.com instead of gpib.com, which you would normally use with DOS. When you install the NI-488.2M software, gpib-nt.com is copied into a new sub-directory called doswin16. To use gpib-nt.com, you must modify your config.nt file to load gpib-nt.com whenever a DOS application is executed. The config.nt file is located in your
\system32 directory, whe
re is your Windows NT directory, for example c:\windows. To load gpib-nt.com, add the following line to your config.nt file:
device=\doswin16\gpib-nt.com
where is the directory where you installed the GPIB software (the default installation directory is c:\gpib-nt).
You can now successfully execute your DOS GPIB applications.