This thread is worth it's weight in gold. Letting newbs flounder around encoding video is what allows video savvy webmasters to stay ahead of the pack!
Cleaner6 on PC is garbage. Try loading 300 hosted movie clips into it (taint happenin'). Discreet did an awesome job of ruining this product between versions 5 and 6.
Pro Encoder is the way to go. Droplets save all your presets and filter settings. SImply drop your clips on the desktop (droplet) icon and it loads them with little delay. IMO Pro Encoder also has better tools for manipulating encoding settings.
SixNine
SoulCash.com