To launch the game with command line arguments, add ? after the address and put the arguments after it in the same format as you use for Quake.

For Scourge of Armagon, add -hipnotic command line argument. For Dissolution of Eternity, add -rogue.

To launch mods, copy the mod folder into the folder containing index.htm and add -game MOD_NAME_HERE command line argument. Ensure step 6 of the installing instructions for the mod folder.

To use browser hotkeys (such as F5, Ctrl+T and Ctrl+W), click the address bar, and when you're done, click the game.