Once you are connected to the server, Fiji will treat it the same way as a local hard drive or flash drive. When you open files, you may have to search for your directory. On the shared computer list, click data.ad.bocklabs.wisc.edu. Click on LOCI, and then your user account. Since ImageJ remembers where you last opened files, you should not have to do this often.
Also, if you are on a Mac or followed the "Map Network Drive" option on a PC, you can drag and drop files from the network drive onto the Bio-Formats shortcut screen.