Most likely, there is a copy of the program saved on the PC without comments and RSLogix500 will use whatever .rss file has the best match when going online. If the copy of the file without comments is a better match (based on the processor name and program checksum), then RSLogix will open that file when going online.
This is usually caused by someone selecting "create new file" when going online. Once that person has finished and goes offline, they will be prompted to save the file. If they save the file with the empty comment and symbol database, then it will be the preferred file when RSLogix goes online the next time it used.
One solution is to find and delete the file with the empty database (or move it somewhere outside of the search path that RSLogix500 uses).
Paul