I think for most users it works best when you map the drive from iSeries Navigator.
Start iSeries Navigator
Open File Systems / File Shares
(If you do not see it you may not have the right iSeries Access components loaded)
(I typically do a Full install and let the user profile handle which components they can use)
Right click the Folder or Directory you want and select Map Network Drive
Enter your information (Including your User ID and Password) and click OK.
You should now be able to see this mapped drive in Windows.
The “best” way for your site can’t be determined from here.
With nothing else to go on, the best way is to remove all passwords and stop using them for authentication to your iSeries. Set up and use an EIM/SSO solution instead. The issue will disappear
The next best way is to keep the userids different between the two areas.